Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 19 of 38
Found at i:2916208 original size:13 final size:13
Alignment explanation
Indices: 2916190--2916215 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2916180 TACAGCAAGT
2916190 ATGTATCGATACA
1 ATGTATCGATACA
2916203 ATGTATCGATACA
1 ATGTATCGATACA
2916216 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:2920299 original size:15 final size:15
Alignment explanation
Indices: 2920279--2920317 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2920269 TAAAAATGTC
*
2920279 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2920294 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
2920309 CCAAATGAA
1 CAAAATGAA
2920318 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2922402 original size:20 final size:21
Alignment explanation
Indices: 2922324--2922401 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
2922314 ATGTCCAAAA
*
2922324 TGTATCGATACATGTTTTTG-
1 TGTATCGATACATCTTTTTGT
** *
2922344 TGTATCGATACATCTGGAAATTCT
1 TGTATCGATACATCT---TTTTGT
2922368 ATGTATCGATACAT-TTTTTGT
1 -TGTATCGATACATCTTTTTGT
2922389 TGTATCGATACAT
1 TGTATCGATACAT
2922402 TGTATCGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
23 2 0.04
24 1 0.02
25 13 0.28
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATCTTTTTGT
Found at i:2922406 original size:13 final size:13
Alignment explanation
Indices: 2922388--2922426 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2922378 ACATTTTTTG
2922388 TTGTATCGATACA
1 TTGTATCGATACA
2922401 TTGTATCGATACA
1 TTGTATCGATACA
*
2922414 CTGTATCGATACA
1 TTGTATCGATACA
2922427 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2924273 original size:18 final size:16
Alignment explanation
Indices: 2924232--2924277 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
2924222 AATTACTTGA
2924232 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
2924248 TTAAGGGGGAGATTTT
1 TTAAGGGGGAGATTTT
2924264 TTAAACGGGGGAGA
1 TT-AA-GGGGGAGA
2924278 CAAAGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 18 0.64
17 2 0.07
18 8 0.29
ACGTcount: A:0.28, C:0.02, G:0.39, T:0.30
Consensus pattern (16 bp):
TTAAGGGGGAGATTTT
Found at i:2924907 original size:20 final size:20
Alignment explanation
Indices: 2924884--2924956 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2924874 ACAACTCAAA
2924884 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
2924904 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2924925 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2924945 GTATCGATACAT
1 GTATCGATACAT
2924957 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2924935 original size:41 final size:42
Alignment explanation
Indices: 2924884--2924978 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
2924874 ACAACTCAAA
*
2924884 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2924925 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
2924967 GTATCGATACAT
1 GTATCGATACAT
2924979 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:2925035 original size:13 final size:13
Alignment explanation
Indices: 2925017--2925042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2925007 TACAGCAAGT
2925017 ATGTATCGATACA
1 ATGTATCGATACA
2925030 ATGTATCGATACA
1 ATGTATCGATACA
2925043 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:2928727 original size:13 final size:13
Alignment explanation
Indices: 2928709--2928735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2928699 ACAATTCTTT
2928709 ATGTATCGATACA
1 ATGTATCGATACA
2928722 ATGTATCGATACA
1 ATGTATCGATACA
2928735 A
1 A
2928736 AGCAATATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2928745 original size:33 final size:34
Alignment explanation
Indices: 2928689--2928753 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
2928679 TGCTAGTTTC
** **
2928689 ATGTATCGATACAATTCTTTATG-TATCGATACA
1 ATGTATCGATACAAAGCAATATGTTATCGATACA
2928722 ATGTATCGATACAAAGCAATATGTTATCGATA
1 ATGTATCGATACAAAGCAATATGTTATCGATA
2928754 ATTCTGGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (34 bp):
ATGTATCGATACAAAGCAATATGTTATCGATACA
Found at i:2931737 original size:20 final size:20
Alignment explanation
Indices: 2931714--2931759 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2931704 AAGGTGTTGG
2931714 ACATGCT-ATAAATGCATGAA
1 ACATGCTCA-AAATGCATGAA
2931734 ACATAGCTCAAAATGCATGAA
1 ACAT-GCTCAAAATGCATGAA
*
2931755 TCATG
1 ACATG
2931760 GACTGTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (20 bp):
ACATGCTCAAAATGCATGAA
Found at i:2932663 original size:52 final size:52
Alignment explanation
Indices: 2932585--2932713 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
2932575 TGAAATATGA
* * * *
2932585 AAATTTGCCTACATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTCCCTGCATGTATCGATACATTTCATAGTGTATCCATACATCTGGGC
* *
2932637 AAATTTCCCTGTATGTATCGATACATTTCATGGTGTATCCATACATCTGGGC
1 AAATTTCCCTGCATGTATCGATACATTTCATAGTGTATCCATACATCTGGGC
**
2932689 AAATTTGTCTGCATGTATCGATACA
1 AAATTTCCCTGCATGTATCGATACA
2932714 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTCCCTGCATGTATCGATACATTTCATAGTGTATCCATACATCTGGGC
Found at i:2932809 original size:13 final size:13
Alignment explanation
Indices: 2932791--2932815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2932781 TACAAACTTA
2932791 TGTATCGATACAT
1 TGTATCGATACAT
2932804 TGTATCGATACA
1 TGTATCGATACA
2932816 ACACTTATGT
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:2932828 original size:19 final size:19
Alignment explanation
Indices: 2932778--2932854 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
2932768 AGCTTCGTAG
2932778 CGATACAA-ACTTATGTAT
1 CGATACAACACTTATGTAT
2932796 CGAT---ACA--T-TGTAT
1 CGATACAACACTTATGTAT
2932809 CGATACAACACTTATGTAT
1 CGATACAACACTTATGTAT
* * *
2932828 CGATACAATATTTTTGTAT
1 CGATACAACACTTATGTAT
2932847 CGATACAA
1 CGATACAA
2932855 ATTGTTGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.18
14 1 0.02
15 1 0.02
16 4 0.08
18 5 0.10
19 29 0.59
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
CGATACAACACTTATGTAT
Found at i:2933829 original size:102 final size:102
Alignment explanation
Indices: 2933698--2933957 Score: 425
Period size: 102 Copynumber: 2.6 Consensus size: 102
2933688 CTTAGGAATG
2933698 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTTAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTTAAAGATGACAAAG
*
2933763 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
66 GCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
* * * *
2933800 TTAAAGGTGAAGGTGTCAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAAGATGACAAAG
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTTAAAGATGACAAAG
2933865 GCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
66 GCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
* * *
2933902 TTAATGATGAAGGTGCCAATGTGCTGA-TCTAAGGCCAGCAACATTGGTC-TTAAAGA
1 TTAAAGATGAAGGTGCCAATGTGCTGATTC-AAGGCCAGCGACATTGGACTTTAAAGA
2933958 AGAATGCCAA
Statistics
Matches: 145, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
101 8 0.06
102 137 0.94
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (102 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTTAAAGATGACAAAG
GCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
Found at i:2933846 original size:49 final size:49
Alignment explanation
Indices: 2933698--2934055 Score: 371
Period size: 49 Copynumber: 7.1 Consensus size: 49
2933688 CTTAGGAATG
2933698 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2933747 TTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 -TTAAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2933800 TTAAAGGTGAAGGTGTCAATGTGCCGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * * *
2933849 TTAAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TT-AAAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
* * *
2933902 TTAATGATGAAGGTGCCAATGTGCTGA-TCTAAGGCCAGCAACATTGGTC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTC-AAGGCCAGCGACATTGGAC
* * * * **
2933951 TTAAAGAAGAA--TGCCAATGTGTTGATCCAAGGCCAACGACATTGGGTT
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGAC
* * * * * *
2933999 TTAAAGATGAAGGTGCCAATATGCTAATTTAAGGCAAACGATATTGGAC
1 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
2934048 TTAGAAGA
1 TTA-AAGA
2934056 AGACGCCACC
Statistics
Matches: 257, Mismatches: 38, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
47 26 0.10
48 16 0.06
49 84 0.33
50 44 0.17
52 14 0.05
53 73 0.28
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
Found at i:2934123 original size:30 final size:28
Alignment explanation
Indices: 2934060--2934136 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 28
2934050 AGAAGAAGAC
* * *
2934060 GCCACCAACTTGTGTGCTTTTGAAGGTT
1 GCCACTAACTTGTGGGCTTTTGAAGGGT
2934088 GCCACTAACTTGTGGGCTTTTGAAAAGGGT
1 GCCACTAACTTGTGGGCTTTTG--AAGGGT
**
2934118 GCCACTGCCTTGTGGGCTT
1 GCCACTAACTTGTGGGCTT
2934137 AAAAGGACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 20 0.48
30 22 0.52
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (28 bp):
GCCACTAACTTGTGGGCTTTTGAAGGGT
Found at i:2934380 original size:57 final size:57
Alignment explanation
Indices: 2934318--2934718 Score: 651
Period size: 57 Copynumber: 7.0 Consensus size: 57
2934308 GGGCTTAAAA
* * * * *
2934318 GGAAAAAGATGCCACGGACTTGTGGGCTTTTGAAGGTTGCCACTGATTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTT
*
2934376 -GAAAAGGGTGCCACTGATTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGAGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTT
* **
2934433 GGAAAAGGGTACCACTGATTTACGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTT
* *
2934491 AGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
*
2934548 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
*
2934605 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
2934662 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
1 GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
2934719 TGAAGGGCGA
Statistics
Matches: 325, Mismatches: 17, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
57 249 0.77
58 76 0.23
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.32
Consensus pattern (57 bp):
GGAAAAGGGTGCCACTGATTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
Found at i:2934450 original size:30 final size:27
Alignment explanation
Indices: 2934327--2934725 Score: 411
Period size: 30 Copynumber: 14.0 Consensus size: 27
2934317 AGGAAAAAGA
* * *
2934327 TGCCACGGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGATTTGTGGGC-TTTGAAGGG
2934355 TGCCACTGATTTGTGGGCTTTGAAAAGGG
1 TGCCACTGATTTGTGGGCTTTG--AAGGG
*
2934384 TGCCACTGATTTGTGGGCTTTTGAAGGT
1 TGCCACTGATTTGTGGGC-TTTGAAGGG
* *
2934412 TGCCACTGACTTGTGAGCTTTGGAAAAGGG
1 TGCCACTGATTTGTGGGCTTT-G--AAGGG
* ** *
2934442 TACCACTGATTTACGGGCTTTTGAAGGT
1 TGCCACTGATTTGTGGGC-TTTGAAGGG
*
2934470 TGCCACTGACTTGTGGGCTTTAGAAAAGGG
1 TGCCACTGATTTGTGGGCTTT-G--AAGGG
*
2934500 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGATTTGTGGGCTTTGAAGGG
* *
2934527 TGCCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGATTTGTGGGCTTT-G--AAGGG
*
2934557 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGATTTGTGGGCTTTGAAGGG
* *
2934584 TGCCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGATTTGTGGGCTTT-G--AAGGG
*
2934614 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGATTTGTGGGCTTTGAAGGG
* *
2934641 TGCCACTAACTTGTGGGCTTTGGAAAAGGG
1 TGCCACTGATTTGTGGGCTTT-G--AAGGG
*
2934671 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGATTTGTGGGCTTTGAAGGG
*
2934698 TGCCACTGACTTGTGGGCTTTTGAAGGG
1 TGCCACTGATTTGTGGGC-TTTGAAGGG
2934726 CGAGGAATGT
Statistics
Matches: 311, Mismatches: 40, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
27 100 0.32
28 67 0.22
29 26 0.08
30 115 0.37
31 3 0.01
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (27 bp):
TGCCACTGATTTGTGGGCTTTGAAGGG
Found at i:2936186 original size:26 final size:26
Alignment explanation
Indices: 2936149--2936206 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
2936139 CATCTAGACC
*
2936149 CTTTTTG-TTGTTAT-TGTTTTTTTTT
1 CTTTTTGTTTGTT-TGTGTTTCTTTTT
2936174 CTTTTTGTTTGTTTGTGTTTCTTTTT
1 CTTTTTGTTTGTTTGTGTTTCTTTTT
2936200 -TTTTTGT
1 CTTTTTGT
2936207 AGAGGACGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.02, C:0.05, G:0.14, T:0.79
Consensus pattern (26 bp):
CTTTTTGTTTGTTTGTGTTTCTTTTT
Found at i:2949902 original size:52 final size:52
Alignment explanation
Indices: 2949824--2949946 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
2949814 CAAAATATGA
*
2949824 AAATTTGCCTGCATGTATCGATACATTTCATA-GTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCA-AGGTGTATCGATACATCTGGGC
* *
2949876 AAATTTGCCTATATGTATCGATACATTTCAAGGTGTATCGATACATTTGGGC
1 AAATTTGCCTACATGTATCGATACATTTCAAGGTGTATCGATACATCTGGGC
* *
2949928 AAATTTGTCTGCATGTATC
1 AAATTTGCCTACATGTATC
2949947 AATATAAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 1 0.02
52 63 0.98
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTTCAAGGTGTATCGATACATCTGGGC
Found at i:2949964 original size:52 final size:51
Alignment explanation
Indices: 2949824--2949972 Score: 147
Period size: 52 Copynumber: 2.9 Consensus size: 51
2949814 CAAAATATGA
* * **
2949824 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATAAAGATCA-AGTGTATCGATACATCTGGGC
* * ** *
2949876 AAATTTGCCTATATGTATCGATACATTTCAAGGTGTATCGATACATTTGGGC
1 AAATTTGCCTACATGTATCGATAAAGATCAA-GTGTATCGATACATCTGGGC
* * *
2949928 AAATTTGTCTGCATGTATCAATATAAAGATC-AGTGTATCGATACA
1 AAATTTGCCTACATGTATC--GATAAAGATCAAGTGTATCGATACA
2949973 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
51 1 0.01
52 76 0.90
53 1 0.01
54 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTACATGTATCGATAAAGATCAAGTGTATCGATACATCTGGGC
Found at i:2955537 original size:20 final size:20
Alignment explanation
Indices: 2955512--2955566 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2955502 AAAACCATTA
2955512 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
2955532 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
2955552 AATGTATCGATACAT
1 AAAGTATCGATACAT
2955567 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:2955656 original size:13 final size:13
Alignment explanation
Indices: 2955638--2955663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2955628 ACACCAAAGT
2955638 ATGTATCGATACA
1 ATGTATCGATACA
2955651 ATGTATCGATACA
1 ATGTATCGATACA
2955664 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:2955661 original size:33 final size:33
Alignment explanation
Indices: 2955619--2955683 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2955609 TAGCCAAACT
* *
2955619 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2955652 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2955684 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2961801 original size:13 final size:13
Alignment explanation
Indices: 2961783--2961821 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2961773 ACATTTTTCT
2961783 TTGTATCGATACA
1 TTGTATCGATACA
2961796 TTGTATCGATACA
1 TTGTATCGATACA
*
2961809 CTGTATCGATACA
1 TTGTATCGATACA
2961822 GGGGAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2961976 original size:20 final size:20
Alignment explanation
Indices: 2961933--2961978 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2961923 AAATCTTTTG
2961933 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2961954 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2961974 CAAAA
1 CAAAA
2961979 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2963534 original size:14 final size:14
Alignment explanation
Indices: 2963515--2963541 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2963505 GTCCTTCTCG
2963515 CGTACCAAACATGC
1 CGTACCAAACATGC
2963529 CGTACCAAACATG
1 CGTACCAAACATG
2963542 TTAGGTACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.33, G:0.15, T:0.15
Consensus pattern (14 bp):
CGTACCAAACATGC
Found at i:2964868 original size:20 final size:20
Alignment explanation
Indices: 2964843--2964897 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2964833 AAAACCCTTA
2964843 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
2964863 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
2964883 AATGTATCGATACAT
1 AAAGTATCGATACAT
2964898 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:2964994 original size:33 final size:33
Alignment explanation
Indices: 2964950--2965014 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2964940 TAGCCAAACT
* *
2964950 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
*
2964983 TGTATCTATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2965015 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2966902 original size:28 final size:27
Alignment explanation
Indices: 2966841--2966911 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
2966831 AAGTAAAAAC
*
2966841 GGGGTTGGAGTATCTCCTCGGAGATGG
1 GGGGTTGGAGTATCCCCTCGGAGATGG
*
2966868 GTAGGTTGGAGTATCCCCAT-GGAGATGG
1 G-GGGTTGGAGTATCCCC-TCGGAGATGG
*
2966896 TGGGGTTAGAGTATCC
1 -GGGGTTGGAGTATCC
2966912 TTAGAGATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 34 0.92
29 2 0.05
ACGTcount: A:0.18, C:0.14, G:0.41, T:0.27
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCTCGGAGATGG
Found at i:2966931 original size:108 final size:108
Alignment explanation
Indices: 2966793--2966992 Score: 267
Period size: 108 Copynumber: 1.9 Consensus size: 108
2966783 GATGATAGGA
* * * *
2966793 TTAGAGTATTCTCAGAGGTTAAAAATTTGATGTTTCAAAAGTAAAAACGGGGTTGGAGTATCTCC
1 TTAGAGTATCCTCAGAGATGAAAAATTTGATGTTTCAAAAGTAAAAACAGGGTTGGAGTATCTCC
*
2966858 TCGGAGATGG-GTAGGTTGGAGTATCCCCATGGAGATGGTGGGG
66 TCGGAGATGGTG-AGGTTAGAGTATCCCCATGGAGATGGTGGGG
* * * ** *
2966901 TTAGAGTATCCTTAGAGATGAAAAATTTGATGTTTTAGAAGTAAAAGTAGGGTTGGAGTATCTTC
1 TTAGAGTATCCTCAGAGATGAAAAATTTGATGTTTCAAAAGTAAAAACAGGGTTGGAGTATCTCC
* *
2966966 TTGGAGATGGTGGGGTTAGAGTATCCC
66 TCGGAGATGGTGAGGTTAGAGTATCCC
2966993 TAGAGATGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 77 0.99
109 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.31, T:0.31
Consensus pattern (108 bp):
TTAGAGTATCCTCAGAGATGAAAAATTTGATGTTTCAAAAGTAAAAACAGGGTTGGAGTATCTCC
TCGGAGATGGTGAGGTTAGAGTATCCCCATGGAGATGGTGGGG
Found at i:2967004 original size:80 final size:79
Alignment explanation
Indices: 2966871--2967048 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 79
2966861 GAGATGGGTA
** * * *
2966871 GGTTGGAGTATCCCCATGGAGATGGTGGGGTTAGAGTATCCTTAGAGATGAAAAATTT-GATGTT
1 GGTTGGAGTATCTTCTTGGAGATGGTGGGGTTAGAGTATCCCTAGAGATGAAAAATTTCG-CGTT
2966935 TTAGAAGTAAAA-GTAG
65 TTAGAAGTAAAACG--G
*
2966951 GGTTGGAGTATCTTCTTGGAGATGGTGGGGTTAGAGTATCCCTAGAGATGAAAATTTTCGCGTTT
1 GGTTGGAGTATCTTCTTGGAGATGGTGGGGTTAGAGTATCCCTAGAGATGAAAAATTTCGCGTTT
*
2967016 TAGAATTAAAACGG
66 TAGAAGTAAAACGG
*
2967030 GGTTGGAGTACCCTTCTTG
1 GGTTGGAGTA-TCTTCTTG
2967049 ATGTTTTGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
79 11 0.13
80 74 0.85
81 2 0.02
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.32
Consensus pattern (79 bp):
GGTTGGAGTATCTTCTTGGAGATGGTGGGGTTAGAGTATCCCTAGAGATGAAAAATTTCGCGTTT
TAGAAGTAAAACGG
Found at i:2969608 original size:21 final size:20
Alignment explanation
Indices: 2969561--2969613 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2969551 ATTACAAGCT
*
2969561 TGTATTGATACATTCACTTA
1 TGTATCGATACATTCACTTA
2969581 TGTATCGATACA-TCAACTTA
1 TGTATCGATACATTC-ACTTA
2969601 TGGTATCGATACA
1 T-GTATCGATACA
2969614 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 17 0.57
21 11 0.37
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:2974670 original size:79 final size:79
Alignment explanation
Indices: 2974573--2974771 Score: 229
Period size: 79 Copynumber: 2.5 Consensus size: 79
2974563 AACGGGCTTG
* * * *
2974573 GAGTATCCCCTTAAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGGAA
1 GAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGGAA
*
2974637 AAAAAATCGGGATTA
65 AAAAAACCGGGATTA
* * * * *
2974652 GAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGTAATCAATATTTTGGGAA
1 GAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAA
* * * *
2974717 TAAAGCCGGGGTTG
66 AAAAACCGGGATTA
* **
2974731 GAGTATCCCCTTGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 GAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGAT
2974772 GAAATAACGA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 99 0.99
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
GAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGGAAA
AAAAACCGGGATTA
Found at i:2974763 original size:28 final size:28
Alignment explanation
Indices: 2974723--2974799 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
2974713 GGAATAAAGC
* **
2974723 CGGGGTTGGAGTATCCCC-TTGGAGGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
2974751 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
2974779 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
2974800 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2974884 original size:187 final size:186
Alignment explanation
Indices: 2974560--2974954 Score: 501
Period size: 187 Copynumber: 2.1 Consensus size: 186
2974550 TTTTGGAGAT
* * * * *
2974560 AATAACGGGCTTGGAGTATCCCCTTAAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATC
1 AATAACGGGGTTGGAGTATCCCCATAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATC
* *
2974625 GATGATTAGGAAAAAAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC
66 GATGATTAGGAAAAAAAACCGGGATTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCC
* * * *
2974690 AATTATGAGTAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTTGGA
131 AATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAA
** * *
2974746 GGTAACGGGGTTGGAGTATCCCCGAT-GAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAAT
1 AATAACGGGGTTGGAGTATCCCC-ATAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAAT
* * ** *
2974810 TGATGTTTTTGAAAATAAAACCAGTG-TT-GAAGTATCCCCTC-GAAAATAACAGGGTTGGAGTA
65 CGATGATTAGGAAAA-AAAACC-GGGATTAG-AGTATCCCCTCAG-AAATAACAGGGTTGGAGTA
* * *
2974872 TCCCCGATTATGAGAAATTAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGAA
126 TCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAA
*
2974933 AATAACTGGGTTGGAGTATCCC
1 AATAACGGGGTTGGAGTATCCC
2974955 TGATTATGAG
Statistics
Matches: 178, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
186 66 0.37
187 110 0.62
188 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (186 bp):
AATAACGGGGTTGGAGTATCCCCATAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATC
GATGATTAGGAAAAAAAACCGGGATTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCC
AATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAA
Found at i:2974936 original size:79 final size:78
Alignment explanation
Indices: 2974753--2975037 Score: 376
Period size: 79 Copynumber: 3.6 Consensus size: 78
2974743 GGAGGTAACG
* * * * *
2974753 GGGTTGGAGTAT-CCC-CGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATGT
1 GGGTTGGAGTATCCCCTCGA--AAATAACG-GGTTGGAGTATCCCCGATTATGAGAAATTAAT-A
* *
2974816 TTTTGAAAATAAAACCA
62 TTTTGGAAATAAAGCCA
* *
2974833 GTGTTGAAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTT
* *
2974898 TGGAAATAAAGTCG
65 TGGAAATAAAGCCA
*
2974912 GGGTTGGAGTATCCCCTCGAAAATAACTGGGTTGGAGTATCCCTGATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTATGAGAAATTAATATTT
2974977 TGGAAATAAAGCCA
65 TGGAAATAAAGCCA
*
2974991 GGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGAT
2975038 GATTAACAAG
Statistics
Matches: 182, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
79 130 0.71
80 45 0.25
81 4 0.02
82 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTT
GGAAATAAAGCCA
Found at i:2974997 original size:266 final size:265
Alignment explanation
Indices: 2974574--2975084 Score: 713
Period size: 266 Copynumber: 1.9 Consensus size: 265
2974564 ACGGGCTTGG
* * * * *
2974574 AGTATCCCCTTAAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAGAAATCGATGATTAGGAAAA
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATGATTAGGAAAA
*
2974639 AAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGTAATC
66 AAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATC
* * * * ** *
2974704 AATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTTGGAGGTAACGGGGTTGGAGTATCCCC
131 AATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCC
* *
2974769 GATGAAATAACGAGGTTGGAGTAT-CCTCGATTGTGAAAAATTGATGTTTTTGAAAATAAAACCA
196 GATG-AATAACAAGGTTGGAGTATCCCT-GACTGTGAAAAATTGATGTTTTTGAAAATAAAACCA
2974833 GTGTTGA
259 GTGTTGA
* * *
2974840 AGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-ATTTTGGAAA
1 AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATGA-TTAGGAAA
* * * * * **
2974904 TAAAGTCGGGGTTGGAGTATCCCCTC-GAAAATAACTGGGTTGGAGTATCCCTGATTATGAGAAA
65 AAAAATCGGGATTAGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCAATTATGAGAAA
*
2974968 TTAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCC
129 TCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCC
* *
2975033 CCGATGATTAACAAGGTTGGAGTATCCCTGACTGTGAAAAATTGGTGTTTTT
194 CCGATGAATAACAAGGTTGGAGTATCCCTGACTGTGAAAAATTGATGTTTTT
2975085 TTGGAAATAA
Statistics
Matches: 214, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
265 40 0.19
266 174 0.81
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (265 bp):
AGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATCAATGATTAGGAAAA
AAAATCGGGATTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATC
AATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGCTGGAGTATCCCC
GATGAATAACAAGGTTGGAGTATCCCTGACTGTGAAAAATTGATGTTTTTGAAAATAAAACCAGT
GTTGA
Found at i:2975128 original size:54 final size:51
Alignment explanation
Indices: 2975048--2975170 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
2975038 GATTAACAAG
* * * * *
2975048 GTTGGAGTATCCCTGACTGTGAAAAATTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG---TTTTGAAAATAAAATCGGA
2975102 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAATCGGA
* *
2975153 GTTAGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
2975171 GTGGAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
51 34 0.56
53 1 0.02
54 26 0.43
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:2977465 original size:13 final size:13
Alignment explanation
Indices: 2977447--2977472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2977437 ACAAAGATCG
2977447 ATGTATCGATACA
1 ATGTATCGATACA
2977460 ATGTATCGATACA
1 ATGTATCGATACA
2977473 TTTCCTTGGC
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:2977514 original size:13 final size:13
Alignment explanation
Indices: 2977496--2977572 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 13
2977486 AGCTTTGTAG
2977496 CGATACATTGCAT
1 CGATACATTGCAT
*
2977509 CGATACAACTTATGTAT
1 CGATAC-A--T-TGCAT
2977526 CGATACATTGCAT
1 CGATACATTGCAT
* *
2977539 CAATACAACTTATGTAT
1 CGATAC-A--T-TGCAT
2977556 CGATACATTGCAT
1 CGATACATTGCAT
2977569 CGAT
1 CGAT
2977573 GCAAAACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
13 23 0.46
14 4 0.08
16 4 0.08
17 19 0.38
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (13 bp):
CGATACATTGCAT
Found at i:2977529 original size:17 final size:17
Alignment explanation
Indices: 2977507--2977562 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
2977497 GATACATTGC
2977507 ATCGATACAACTTATGT
1 ATCGATACAACTTATGT
*
2977524 ATCGATAC-A--T-TGC
1 ATCGATACAACTTATGT
*
2977537 ATCAATACAACTTATGT
1 ATCGATACAACTTATGT
2977554 ATCGATACA
1 ATCGATACA
2977563 TTGCATCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 9 0.29
14 2 0.06
16 2 0.06
17 18 0.58
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (17 bp):
ATCGATACAACTTATGT
Found at i:2977530 original size:30 final size:30
Alignment explanation
Indices: 2977491--2977596 Score: 167
Period size: 30 Copynumber: 3.5 Consensus size: 30
2977481 GCAGTAGCTT
*
2977491 TGTAGCGATACATTGCATCGATACAACTTA
1 TGTATCGATACATTGCATCGATACAACTTA
*
2977521 TGTATCGATACATTGCATCAATACAACTTA
1 TGTATCGATACATTGCATCGATACAACTTA
*
2977551 TGTATCGATACATTGCATCGATGCAAAACTTA
1 TGTATCGATACATTGCATCGAT--ACAACTTA
2977583 TGTATCGATACATT
1 TGTATCGATACATT
2977597 TACAGAATGT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 49 0.70
32 21 0.30
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (30 bp):
TGTATCGATACATTGCATCGATACAACTTA
Found at i:2980720 original size:22 final size:21
Alignment explanation
Indices: 2980669--2980726 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
2980659 GTCAAAACCC
2980669 AATATGTATCGATACAAAGAT
1 AATATGTATCGATACAAAGAT
**
2980690 AA-ATGTATCGATACAATTAT
1 AATATGTATCGATACAAAGAT
2980710 AAGTATGTATCGATACA
1 AA-TATGTATCGATACA
2980727 TTTACTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 18 0.55
21 2 0.06
22 13 0.39
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (21 bp):
AATATGTATCGATACAAAGAT
Found at i:2980738 original size:20 final size:20
Alignment explanation
Indices: 2980692--2980749 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
2980682 ACAAAGATAA
2980692 ATGTATCGATACAATTATAAGT
1 ATGTATCGATAC-ATT-TAAGT
**
2980714 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTTAAGT
2980734 ATGTATC-AGTACATTT
1 ATGTATCGA-TACATTT
2980750 CCTTGGCAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.03
20 17 0.52
21 3 0.09
22 12 0.36
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTAAGT
Found at i:2981519 original size:61 final size:61
Alignment explanation
Indices: 2981252--2981905 Score: 577
Period size: 61 Copynumber: 10.6 Consensus size: 61
2981242 GAAGTAGATG
* * *
2981252 GGTGCCACCAACTAGTGTGGGCTTTGATATAGAAAAGGAGAGAGGCGTCCTGCTCTTTGAGGACT
1 GGTGCCACCAACTTGTGTGGGC--T--T-TA-AAAA-GAGA-AGGTGTCCTACTCTTTGAGGACT
2981317 AGAA
58 AGAA
* * * * * * * *
2981321 GTTTCCACCAACTTGTGTGGGCATTAAAAGAAAAAAGGAAATGTCCTGCTTTTTGAGGACTAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAGAAGG---TGTCCTACTCTTTGAGGACTAGAA
* * * * * * ** * * * *
2981386 GGTGCCACCAGCTTGTGTAGGCTTTGAGAAGAAAAAAGCATCCTACTCTTCGAAGATTAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAG-AGAAGGTGTCCTACTCTTTGAGGACTAGAA
* *
2981448 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTATTTTTTGAGGACTAGAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
*
2981509 GGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAGTGTCC-AGCTCTTTGAGGACTAGAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTA-CTCTTTGAGGACTAGAA
* ** * *
2981568 GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTCTTTAAGGACTAGAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
* * * * *
2981629 GGTGCAACCAACTTGTATGGGCTTT-CAAAG-GAAAGTGTCCTACTCTTTAAGGACTAGAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
* * * * * *
2981688 GGTGCCACCAACTTGTGTAGGCTTT-AAGAG-GAAAGTGCCCTGCTCTTTGAGGACTAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
* * * ** * * * *
2981747 GGTGCCACTAACTTGTGTGGCCTTTAAAAGGAGAAGGCATTCTACTATTTGATGACTAAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
* * * * *
2981808 GGTACCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTTTTTAAAGA-TTGAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAG-AA
* * * *
2981869 AGTGCCACCAACCTATGTGGGCTTTAAAAGGAGAAGG
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGG
2981906 CATCTTGCTT
Statistics
Matches: 478, Mismatches: 95, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
58 1 0.00
59 146 0.31
60 16 0.03
61 191 0.40
62 47 0.10
63 5 0.01
64 4 0.01
65 49 0.10
69 19 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTCTTTGAGGACTAGAA
Found at i:2981623 original size:120 final size:119
Alignment explanation
Indices: 2981304--2981900 Score: 574
Period size: 120 Copynumber: 4.9 Consensus size: 119
2981294 AGGCGTCCTG
* * * * * *
2981304 CTCTTTGAGGACTAGAAGTTTCCACCAACTTGTGTGGGCATTAAAAGAAAAAAGGAAATGTCCTG
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-GAGAAGG-CA--TCCTG
* * * ** **
2981369 CTTTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAGAAGAAAAAAGCATCCTA
62 CTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-A-AA-AGGAAAGTGTCC-A
* * * * * ** **
2981431 CTCTTCGAAGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTATTTT
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTTT
2981496 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCA
66 TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCA
*
2981550 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTC
1 -CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTT
* * * *
2981615 TTTAAGGACTAGAAGGTGCAACCAACTTGTATGGGCTTTCAAAGGAAAGTGTCCTA
65 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCC-A
* * * *
2981671 CTCTTTAAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAGAGGA-AAGTGC--CCTGCTC
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTGCTT
* * * *
2981733 TTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAGGAGAAG-GCATTCTA
65 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGTG---TCCA
* * * * * ** *
2981791 CTATTTGATGACTAAAAGGTACCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTTT
1 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTTT
* * * * * *
2981856 TTAAAGA-TTGAAAAGTGCCACCAACCTATGTGGGCTTTAAAAGGA
66 TTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
2981901 GAAGGCATCT
Statistics
Matches: 393, Mismatches: 66, Indels: 27
0.81 0.14 0.06
Matches are distributed among these distances:
118 47 0.12
119 7 0.02
120 203 0.52
121 9 0.02
122 41 0.10
123 42 0.11
126 5 0.01
127 39 0.10
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (119 bp):
CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTTT
TTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCA
Found at i:2981931 original size:61 final size:61
Alignment explanation
Indices: 2981372--2981929 Score: 580
Period size: 61 Copynumber: 9.2 Consensus size: 61
2981362 TGTCCTGCTT
* * * * * *
2981372 TTTGAGGACTAAAAGGTGCCACCAGCTTGTGTAGGCTTTGAGAAGAAAAAAGCATCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCATCCTACTC
* * * * ** * *
2981434 TTCGAAGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTATTT
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
*
2981495 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGTG--TCC-AGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTA-CTC
* *
2981554 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
* * * * *
2981615 TTTAAGGACTAGAAGGTGCAACCAACTTGTATGGGCTTTCAAAGGA-AAGTG--TCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTACTC
* * * * *
2981674 TTTAAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTAAGAGGA-AAGTGC--CCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG-GCATCCTACTC
* * * *
2981733 TTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGCCTTTAAAAGGAGAAGGCATTCTACTA
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
* * * ** *
2981794 TTTGATGACTAAAAGGTACCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTACTT
1 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
* * * * * * * *
2981855 TTTAAAGATTGAAAA-GTGCCACCAACCTATGTGGGCTTTAAAAGGAGAAGGCATCTTGCTT
1 TTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
2981916 TTTGAGGACTAAAA
1 TTTGAGGACTAAAA
2981930 AGATAAAAGG
Statistics
Matches: 419, Mismatches: 65, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
58 1 0.00
59 152 0.36
60 16 0.04
61 212 0.51
62 38 0.09
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (61 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTACTC
Found at i:2983320 original size:44 final size:44
Alignment explanation
Indices: 2983253--2983337 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
2983243 CGGTGGTGCA
*
2983253 AGCATTTGACAGAACCTGTAGAAATGTCATAGGGAATATCAGCG
1 AGCATTTGACAGAACCTGCAGAAATGTCATAGGGAATATCAGCG
* *
2983297 AGCATTTGACGGAACCTGCAGAAATGTCGTAGGGAATATCA
1 AGCATTTGACAGAACCTGCAGAAATGTCATAGGGAATATCA
2983338 CCATTCCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (44 bp):
AGCATTTGACAGAACCTGCAGAAATGTCATAGGGAATATCAGCG
Found at i:2987810 original size:1 final size:1
Alignment explanation
Indices: 2987799--2987874 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
2987789 CTTCTCTTCT
* * * * * * ** *
2987799 AAAACAAAAAAAACAAAAACAAAAAACAAAAACAAAAAAAAACAAAAAACCAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
2987864 CAAAGAAAAAA
1 AAAAAAAAAAA
2987875 GAGAGAAAAG
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:2987816 original size:6 final size:6
Alignment explanation
Indices: 2987807--2987867 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
2987797 CTAAAACAAA
*
2987807 AAAAAC AAAAAC AAAAAAC AAAAAC -AAAA- AAAAAC AAAAAAC CAAAA-
1 AAAAAC AAAAAC -AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAAAAC
2987854 AAAAAC -AAAAC AAA
1 AAAAAC AAAAAC AAA
2987868 GAAAAAAGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
5 17 0.36
6 18 0.38
7 12 0.26
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:2987824 original size:13 final size:13
Alignment explanation
Indices: 2987806--2987867 Score: 73
Period size: 11 Copynumber: 5.2 Consensus size: 13
2987796 TCTAAAACAA
2987806 AAAAAACAAAAAC
1 AAAAAACAAAAAC
2987819 AAAAAACAAAAAC
1 AAAAAACAAAAAC
2987832 --AAAA-AAAAAC
1 AAAAAACAAAAAC
*
2987842 AAAAAAC-CAAA-
1 AAAAAACAAAAAC
2987853 AAAAAAC-AAAAC
1 AAAAAACAAAAAC
2987865 AAA
1 AAA
2987868 GAAAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
10 6 0.14
11 14 0.33
12 10 0.23
13 13 0.30
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAAAAC
Found at i:2987838 original size:16 final size:16
Alignment explanation
Indices: 2987799--2987874 Score: 90
Period size: 16 Copynumber: 4.9 Consensus size: 16
2987789 CTTCTCTTCT
2987799 AAAAC-AAAAAAAACA
1 AAAACAAAAAAAAACA
2987814 AAAAC---AAAAAACA
1 AAAACAAAAAAAAACA
2987827 AAAACAAAAAAAAACAA
1 AAAACAAAAAAAAAC-A
2987844 AAAACCAAAAAAAAAC-
1 AAAA-CAAAAAAAAACA
2987860 AAAACAAAGAAAAAA
1 AAAACAAA-AAAAAA
2987875 GAGAGAAAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.24
15 9 0.16
16 17 0.31
17 5 0.09
18 11 0.20
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAACA
Found at i:2987838 original size:28 final size:27
Alignment explanation
Indices: 2987799--2987874 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 27
2987789 CTTCTCTTCT
2987799 AAAACAAAAAAAAC-AAAAACAAAAAACA
1 AAAACAAAAAAAACAAAAAAC-AAAAA-A
*
2987827 AAAACAAAAAAAAACAAAAAACCAAAAA
1 AAAAC-AAAAAAAACAAAAAACAAAAAA
* *
2987855 AAAACAAAACAAAGAAAAAA
1 AAAACAAAAAAAACAAAAAA
2987875 GAGAGAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.30
28 11 0.26
29 13 0.30
30 6 0.14
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (27 bp):
AAAACAAAAAAAACAAAAAACAAAAAA
Found at i:2987839 original size:23 final size:22
Alignment explanation
Indices: 2987799--2987867 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 22
2987789 CTTCTCTTCT
*
2987799 AAAACAAAAAAAACAAAAACAA
1 AAAACAAAAAAAAAAAAAACAA
2987821 AAAACAAAAACAAAAAAAAACAA
1 AAAACAAAAA-AAAAAAAAACAA
*
2987844 AAAACCAAAAAAAAACAAAACAA
1 AAAA-CAAAAAAAAAAAAAACAA
2987867 A
1 A
2987868 GAAAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 10 0.23
23 27 0.63
24 6 0.14
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAACAAAAAAAAAAAAAACAA
Found at i:2989026 original size:55 final size:55
Alignment explanation
Indices: 2988939--2989081 Score: 214
Period size: 55 Copynumber: 2.6 Consensus size: 55
2988929 TCTCTCTTTT
2988939 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * * **
2988994 CACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTAAAGCCCACATGAGTTGGTGG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
**
2989049 CACCCTCCAGTCCTCAAAGAGCAGGACGCCTTT
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTT
2989082 TTCTTTTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 77 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (55 bp):
CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:2989160 original size:60 final size:60
Alignment explanation
Indices: 2988967--2989195 Score: 211
Period size: 55 Copynumber: 3.9 Consensus size: 60
2988957 GAGCAGGACG
* * * ** *
2988967 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA------
1 CCTTTTAAAGCCCACATAAGTTAGTGGCACC-TCCAGTCCTCAAAGAGCAGGACACCTTCT
* * * *
2989022 CCTTTTAAAGCCCACATGAGTTGGTGGCACCCTCCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACATAAGTTAGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTCT
* * * * *
2989083 TCTTTT-AAGCCGACATAAGCTAGTGGCACCTTCAGTCCTCAAAGAGCATGACACCTTCT
1 CCTTTTAAAGCCCACATAAGTTAGTGGCACCTCCAGTCCTCAAAGAGCAGGACACCTTCT
* * * *
2989142 CCTTTTAAAGCCCACATAAGTTAGTGGCACTTCCTAGTACTCAAAAAGTAGGAC
1 CCTTTTAAAGCCCACATAAGTTAGTGGCACCTCC-AGTCCTCAAAGAGCAGGAC
2989196 GCTCTCTCCT
Statistics
Matches: 140, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
55 45 0.32
56 2 0.01
59 32 0.23
60 41 0.29
61 20 0.14
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (60 bp):
CCTTTTAAAGCCCACATAAGTTAGTGGCACCTCCAGTCCTCAAAGAGCAGGACACCTTCT
Found at i:2989313 original size:60 final size:60
Alignment explanation
Indices: 2989236--2989469 Score: 251
Period size: 60 Copynumber: 3.9 Consensus size: 60
2989226 GAGTAGGATG
* * * *
2989236 CCTTTT-ATAGCCCACACAAGCTGGTGGCACTTTCAGTTCTCAAAGAGCAGGATGCCTTCT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAATCCTCAAAGAGCAGGATGCCTT-T
* * *
2989296 CCTTTT-AAAGGCCACACAAGTTAGTGGCACTTTCAATCCTCAAAGAGCAAGATG-CTTT
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAATCCTCAAAGAGCAGGATGCCTTT
* * * * *
2989354 CTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGGGTAGGACGCCTATT
1 CCTTTT-CAAAGCCCACACAAGTTGGTGGCA-CTTTCAATCCTCAAAGAGCAGGATGCCT-TT
* * * *
2989417 -CTTTTCAAAGCCCACACGAGTTGGTCGCACTTTTCAGTCCTCAAAAAGCAGGA
1 CCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAATCCTCAAAGAGCAGGA
2989470 CACACTTCCT
Statistics
Matches: 145, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
58 6 0.04
59 3 0.02
60 69 0.48
61 59 0.41
62 6 0.04
63 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (60 bp):
CCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAATCCTCAAAGAGCAGGATGCCTTT
Found at i:2989385 original size:214 final size:215
Alignment explanation
Indices: 2988997--2989390 Score: 510
Period size: 214 Copynumber: 1.8 Consensus size: 215
2988987 TTGGTGGCAC
** *
2988997 CTTTTAGTCCTCAAAGAGTAGGACACCTTTTAAAGCCCACATGAGTTGGTGGCACCCTCCAGTCC
1 CTTTTAGTCCTCAAAGAGTAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCC
* * * *
2989062 TCAAAGAGCAGGACGCCTTTTTCTTTTAAGCCGACATAAGCTAGTGGCACCTTCAGTCCTCAAAG
66 TCAAAGAGCAGGACGCCTTCTCCTTTTAAGCCGACACAAGCTAGTGGCACCTTCAATCCTCAAAG
* *
2989127 AGCATGACACCTTCTCCTTTTAAAGCCCACATAAGTTAGTGGCA-CTTCCTAGTACTCAAAAAGT
131 AGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCTAGTACTCAAAAAGT
2989191 AGGACGCTCTCTCCTTTCGT
196 AGGACGCTCTCTCCTTTCGT
* ** * * * *
2989211 CTTTTTGTCCTCAAAGAGTAGGATGCCTTTTATAGCCCACACAAGCTGGTGGCA-CTTTCAGTTC
1 CTTTTAGTCCTCAAAGAGTAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCC
* * *
2989275 TCAAAGAGCAGGATGCCTTCTCCTTTTAAAGGCC-ACACAAGTTAGTGGCACTTTCAATCCTCAA
66 TCAAAGAGCAGGACGCCTTCTCCTTTT-AA-GCCGACACAAGCTAGTGGCACCTTCAATCCTCAA
** * *
2989339 AGAGCAAGA-TGCTT-TCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
129 AGAGCAAGACACCTTCTCCTTTT--AAAGCCCACACAAGTTAGTGGCACCTTCC
2989391 AATCCTCAAA
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
212 6 0.04
213 34 0.22
214 104 0.68
215 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (215 bp):
CTTTTAGTCCTCAAAGAGTAGGACACCTTTTAAAGCCCACACAAGCTGGTGGCACCCTCCAGTCC
TCAAAGAGCAGGACGCCTTCTCCTTTTAAGCCGACACAAGCTAGTGGCACCTTCAATCCTCAAAG
AGCAAGACACCTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCTAGTACTCAAAAAGT
AGGACGCTCTCTCCTTTCGT
Found at i:2989547 original size:42 final size:43
Alignment explanation
Indices: 2989487--2989568 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
2989477 CCTTCCCTTT
2989487 TTTTCTCTTTTGTCCTCAAAGAGCAAGACGTACTTTATTTTTC
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACGTACTTTATTTTTC
* * *
2989530 TTTT-TCTTTTGTCCTCAAAGAGTAGGACGTATTTTATTT
1 TTTTCTCTTTTGTCCTCAAAGAGCAAGACGTACTTTATTT
2989569 CCCTTTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (43 bp):
TTTTCTCTTTTGTCCTCAAAGAGCAAGACGTACTTTATTTTTC
Found at i:2989660 original size:42 final size:40
Alignment explanation
Indices: 2989614--2989707 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
2989604 CTCTTTTTCA
* *
2989614 CTTTGTCCTTAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTTAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * * *
2989656 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTTAAGAAGCAAGACCTATTCCATTCTCTCTTC
2989696 CTTTGTCCTTAA
1 CTTTGTCCTTAA
2989708 AAAGTGGGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 17 0.39
41 5 0.11
42 22 0.50
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.43
Consensus pattern (40 bp):
CTTTGTCCTTAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:2990177 original size:21 final size:20
Alignment explanation
Indices: 2990147--2990185 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2990137 CACATTTTTG
2990147 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
2990167 TCCAGAATGTATCGATACA
1 TCCA-AATGTATCGATACA
2990186 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:2990402 original size:20 final size:19
Alignment explanation
Indices: 2990379--2990443 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 19
2990369 ATGTATTGAC
2990379 ACATTTTGCATTGTATCGAT
1 ACATTTT-CATTGTATCGAT
*
2990399 ACATTGCTCATTGTATCGAT
1 ACATT-TTCATTGTATCGAT
*
2990419 ACATTTTACAATGTATCGAT
1 ACATTTT-CATTGTATCGAT
2990439 ACATT
1 ACATT
2990444 CAGGCATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (19 bp):
ACATTTTCATTGTATCGAT
Found at i:2992861 original size:51 final size:51
Alignment explanation
Indices: 2992733--2992912 Score: 204
Period size: 51 Copynumber: 3.5 Consensus size: 51
2992723 AAATTTCTAG
* * * *
2992733 ATTTTTCAT-CTCGGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACA-AC
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACACCC
* *
2992782 ATTTTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 A--TTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
* * * *
2992835 ATTTTCCATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACTCCA
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
* *
2992886 ACTTTTCATAATCGAGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
2992913 CCCGTTATTT
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
51 75 0.68
52 32 0.29
53 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCC
Found at i:2992954 original size:79 final size:79
Alignment explanation
Indices: 2992848--2993195 Score: 463
Period size: 79 Copynumber: 4.4 Consensus size: 79
2992838 TTCCATAATC
* * * * *
2992848 GGGGATACTCCAACTCTGATTTTATTTCCAAAAC-TCCAACTTTTCATAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT-CAATTTTTCATAATCGAGGATACTCCAA
2992912 CCCCGTTATTTCCGA
65 CCCCGTTATTTCCGA
* * *
2992927 GGGGACACTCTAACCCGGGTTTTATTTCTAAAACATCAATTTTT--T-ATC-AGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGA-GGATACTCCAA
** *
2992988 CCCCGTTATTTTTGG
65 CCCCGTTATTTCCGA
* *
2993003 GGGGATACTCCAACCCCGGTTCTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
* *
2993068 CCCGTTATTTTCGG
66 CCCGTTATTTCCGA
* * *
2993082 GGGGATACTCCAACCTCGGTTCTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
*
2993147 CCCGTTATTTCTGA
66 CCCGTTATTTCCGA
*
2993161 GGGGATACTCCAACCCCGGTTTTCTTTCTAAAACA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
2993196 CTAATTCTCC
Statistics
Matches: 240, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
75 1 0.00
76 66 0.28
77 1 0.00
78 1 0.00
79 170 0.71
80 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:2993292 original size:158 final size:159
Alignment explanation
Indices: 2993130--2993466 Score: 414
Period size: 158 Copynumber: 2.1 Consensus size: 159
2993120 ATTTTTCATA
* * * *
2993130 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTCTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
** ** *
2993195 ACTAA-TTCTCCACAA-TAGGGGATA-TTCCAACTTCGATTTTATTTCCAAAATACTAATTTTTC
66 ACTAATTTCT-CACAATTA-GGGATACTT-CAACCCCGATCATATTTCCAAAATACTAATTTCTC
*
2993257 AGAATCAGGGATACGCCAACCCCGTT-TTTTC
128 AGAATCAGGGATACGCCAACCCCATTATTTTC
* *
2993288 ATCGGGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
* * * * * *
2993353 ATTGATTTCTCACAATTAGGGATACTTCAACCCCGGTCATATTTCTAAAATATTAATTTCTCATA
66 ACTAATTTCTCACAATTAGGGATACTTCAACCCCGATCATATTTCCAAAATACTAATTTCTCAGA
** *
2993418 ATTGGGGATACTCCAACCCCATTATTTTC
131 ATCAGGGATACGCCAACCCCATTATTTTC
*
2993447 A-CGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
2993467 ATTTTATTTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
158 138 0.91
159 14 0.09
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (159 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAC
ACTAATTTCTCACAATTAGGGATACTTCAACCCCGATCATATTTCCAAAATACTAATTTCTCAGA
ATCAGGGATACGCCAACCCCATTATTTTC
Found at i:2993298 original size:28 final size:28
Alignment explanation
Indices: 2993264--2993336 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
2993254 TTCAGAATCA
* * *
2993264 GGGATACGCCAACCCCGTTTTTTC-ATCG
1 GGGATACTCCAACCCCGTTATTTCTA-AG
*
2993292 GGGATACTCCAACCCTGTTATTTCTAAG
1 GGGATACTCCAACCCCGTTATTTCTAAG
2993320 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
2993337 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCTAAG
Found at i:2993384 original size:51 final size:51
Alignment explanation
Indices: 2993320--2993437 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
2993310 TATTTCTAAG
* *
2993320 GGGATACTCCAACCCCGG-CTTTATTTCCAAAATATTGATTTCTCACAATTA
1 GGGATACTCCAACCCCGGTC-ATATTTCCAAAATATTAATTTCTCACAATTA
* * * *
2993371 GGGATACTTCAACCCCGGTCATATTTCTAAAATATTAATTTCTCATAATTG
1 GGGATACTCCAACCCCGGTCATATTTCCAAAATATTAATTTCTCACAATTA
2993422 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
2993438 ATTATTTTCA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGTCATATTTCCAAAATATTAATTTCTCACAATTA
Found at i:2993425 original size:130 final size:128
Alignment explanation
Indices: 2993288--2993615 Score: 329
Period size: 130 Copynumber: 2.5 Consensus size: 128
2993278 CCGTTTTTTC
*
2993288 ATCGGGGATACTCCAACCCTGTTA-TTTCTAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCC-GTTATTTTC-AAGGGGATACTCCAACCCCGGTTTTATTTCCAAAA
* * *
2993352 TATTGATTTCTCACAATTAGGGATACTTCAACCCCGGTCATATTTCTAAAAT-ATTAATTTCTCA
64 TATT-ATTTCTCACAATCAGGGACACTTCAACCCCGGCCATATTTCT-AAATCATTAATTTCTCA
*
2993416 TA
127 CA
* * * * * *** *
2993418 ATTGGGGATACTCCAACCCCATTATTTTCACGGGGATACTCCAATCCCGATTTTATTTTTGAAAC
1 ATCGGGGATACTCCAA-CCCGTTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT
* * * *** * * *
2993483 ATCTATTTTTTATAATCAGGGACACTTCAACCGTTGCCTTATTTCTAAATCATTGATTTTTCACA
65 AT-TATTTCTCACAATCAGGGACACTTCAACCCCGGCCATATTTCTAAATCATTAATTTCTCACA
* * * *
2993548 ATCGGGGATACTCCATCTCGTTATTTTCGAGGGGATACTCCAACCCC-GTTATTATCTCCAAAAT
1 ATCGGGGATACTCCAACCCGTTATTTTCAAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAAT
2993612 ATTA
65 ATTA
2993616 AATTTCTCGT
Statistics
Matches: 157, Mismatches: 36, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
128 4 0.03
129 40 0.25
130 105 0.67
131 8 0.05
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (128 bp):
ATCGGGGATACTCCAACCCGTTATTTTCAAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATA
TTATTTCTCACAATCAGGGACACTTCAACCCCGGCCATATTTCTAAATCATTAATTTCTCACA
Found at i:2994712 original size:123 final size:122
Alignment explanation
Indices: 2994566--2995293 Score: 622
Period size: 123 Copynumber: 5.9 Consensus size: 122
2994556 AGCGACAAGT
* *
2994566 AGGATGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTAGCACCTTTAGTCCTCAAAGAGCAAGA
1 AGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGA
* * * * ** *
2994631 CACCTTTTCCTTTTCAAAGCTCACACGAGTTGGTAACACCCTT-TAGTCCTTAAAGAGC
65 CGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGC
* * * ** *
2994689 AGGACGCCTTTTTTCTTTTAAAGCCTACATGAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGA
1 AGGATGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGA
* * * *
2994754 TGCCTTTTCTTTTTCAAAACCCACACGAGTTGGTGGCACCCTT-TAGTCCTCAAAGGGC
65 CGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGC
* ** * ** * *
2994812 AGAACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAACCCTTAAAGAGCTGG
1 AGGATGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGG
* * * * * *
2994877 ACGTCTTTT-CTTTTTAAAGCTCACACAAGTTGGTGGTACCTTCTAGTCCTCAAATAGC
64 ACGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
** * * * *
2994935 AATATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACTTTTCAGTCCTCGAAGAGTAGGA
1 AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGA
** *
2995000 CTTCTTTTCCTTTT-AAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGT
65 CGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
* * * ** * * ** * ** * *
2995057 AGGATGCCTTTTTCGTTCAACTCCTACACAAATTGGTGGCAAATTTCAATCCTTGAAGAGTAGGG
1 AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGA
*** * * * *
2995122 CATATTTTCCTTTT-AAAGCCCACACAAGTTGATGGCACTTTCTAGTCCTCAAAGAGT
65 CGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
* * * * * ** * *
2995179 AGAAAGCCTTTTTTCTTTTAAAGCCCGCACGAGTTAATGGCACCTTTTAGTCCTCCAAGAGTAGG
1 AGGATGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAGG
* * * ** *
2995244 ATGCCTTTTTCTTTT-AAAACCCATATGAGTTGGTGGCACATTCTAGTCCT
64 ACGCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCT
2995294 TGAAAAGCAA
Statistics
Matches: 491, Mismatches: 107, Indels: 14
0.80 0.17 0.02
Matches are distributed among these distances:
121 4 0.01
122 200 0.41
123 251 0.51
124 36 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (122 bp):
AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGAC
GCCTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGC
Found at i:2994759 original size:61 final size:60
Alignment explanation
Indices: 2994563--2995367 Score: 613
Period size: 61 Copynumber: 13.2 Consensus size: 60
2994553 CACAGCGACA
* *
2994563 AGTAGGATGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTAGCACCTTTAGTCCTCAAAG
1 AGTAGGATGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
* * ** * * * ** *
2994624 AGCAAGACACCTTTTCCTTTTCAAAGCTCACACGAGTTGGTAACACCCTTTAGTCCTTAAAG
1 AGTAGGATGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAG
* * * **
2994686 AGCAGGACGCCTTTTTTCTTTTAAAGCCTACATGAGTTGGTGGCACCTTTAGTCCTCAAAG
1 AGTAGGATGCC-TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
* *
2994747 AGTAGGATGCC-TTTTCTTTTTCAAAACCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAG
1 AGTAGGATGCCTTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAG
* * * ** ** *
2994809 GGCAGAACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAACCCTTAAAG
1 AGTAGGATGCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTCCTCAAAG
* * * * *
2994871 AGCT-GGACGTC-TTTTCTTTTTAAAGCTCACACAAGTTGGTGGTACCTTCTAGTCCTCAAAT
1 AG-TAGGATGCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAG
* ** * * * *
2994932 AGCAATATGCCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACTTTTCAGTCCTCGAAG
1 AGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAG
* * *
2994993 AGTAGGACT-TCTTTTCCTTTTAAAACCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAG
1 AGTAGGA-TGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAG
* * ** * * ** * **
2995054 AGTAGGATGCCTTTTTCGTTCAACTCCTACACAAATTGGTGGCAAATTTCAATCCTTGAAG
1 AGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAG
* * *
2995115 AGTAGG--GCATATTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTTCTAGTCCTCAAAG
1 AGTAGGATGCCT-TTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAG
* * * * ** *
2995176 AGTAGAAAGCCTTTTTTCTTTTAAAGCCCGCACGAGTTAATGGCACCTTTTAGTCCTCCAAG
1 AGTAGGATGCC-TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAG
* * ** * *
2995238 AGTAGGATGCCTTTTTCTTTTAAAACCCATATGAGTTGGTGGCACATTCTAGTCCTTGAAA-
1 AGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCC-TCAAAG
* * ** * * * * *
2995299 AGCAAGACACCCTTTGC---AAAATGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAGG
1 AGTAGGATGCCTTTTTCTTTTAAA-GCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAG
2995358 AGTAGGATGC
1 AGTAGGATGC
2995368 ACCCTATTTC
Statistics
Matches: 594, Mismatches: 124, Indels: 54
0.77 0.16 0.07
Matches are distributed among these distances:
58 6 0.01
59 41 0.07
60 17 0.03
61 342 0.58
62 160 0.27
63 27 0.05
64 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (60 bp):
AGTAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAG
Found at i:2995422 original size:43 final size:41
Alignment explanation
Indices: 2995348--2995854 Score: 303
Period size: 43 Copynumber: 11.8 Consensus size: 41
2995338 GCACCTTCTA
* *
2995348 GTCCTCAAGGAGTAGGATGCAC-CCTATTTCCTTTATTTCCTTT
1 GTCCTCAAAGAGTAGGA--CACACTTATTTCCTTT-TTTCCTTT
*
2995391 GTCCTCAAAGAGTAGGACACACTTAGCTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGTAGGACACACTTA-TTTCCTT-TTTTCCTTT
* ** *
2995434 GTCCTCAAAGAGCAGGATGCA-TCT-TTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGTAGGACACACT-TATTTCCTTTTTTCCTTT
* * *
2995474 GTCCTCAAAGAATAGGACACATTTTTTTCCTTCTTTTCCCCTTTT
1 GTCCTCAAAGAGTAGGACACACTTATTTCCTT-TTTT--CC-TTT
** **
2995519 GTCCTCAAAGAGTAGGATGCACTTCATTTTTTTTCTTTTCCTCTCT
1 GTCCTCAAAGAGTAGGACACACTT-A-TTTCCTT-TTTTCCT-T-T
* * * ** *
2995565 AGTCCTTAAACAGGAGGACGTACTTTATTTTCCTTTTTT-TTTT
1 -GTCCTCAAAGAGTAGGACACAC-TTA-TTTCCTTTTTTCCTTT
* * *
2995608 GTCCTCAAAGAGTAGGATACACTGAACTTCCTTCTTTTCCTTT
1 GTCCTCAAAGAGTAGGACACACT-TATTTCCTT-TTTTCCTTT
* ** * *
2995651 GTCCTCAATGAGTAGGATGCACTT-TTTCATTTTCTCCTTT
1 GTCCTCAAAGAGTAGGACACACTTATTTCCTTTTTTCCTTT
* *
2995691 GTCCTCAAAGAGAAGGACACATTCTATTTCCTTCTTTTCCCTTTTT
1 GTCCTCAAAGAGTAGGACACACT-TATTTCCTT-TTTT-CC--TTT
* ** * **
2995737 TTCCTCAAAGAACAAGATGCACTTAATTTCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGTAGGACACACTT-ATTTCCTT-TTTT-CC-TTT
* * * *
2995782 ATCTTCAAAGAGCAGGACACACTT-TATTCGCCTTTTTCCTTT
1 GTCCTCAAAGAGTAGGACACACTTAT-TTC-CTTTTTTCCTTT
*
2995824 GTCCTCAAAGAGCAGGACAC-C-T-TTTCCTTTT
1 GTCCTCAAAGAGTAGGACACACTTATTTCCTTTT
2995855 AAAGTCCACA
Statistics
Matches: 369, Mismatches: 67, Indels: 61
0.74 0.13 0.12
Matches are distributed among these distances:
38 4 0.01
39 3 0.01
40 54 0.15
41 31 0.08
42 55 0.15
43 80 0.22
44 14 0.04
45 52 0.14
46 40 0.11
47 34 0.09
48 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (41 bp):
GTCCTCAAAGAGTAGGACACACTTATTTCCTTTTTTCCTTT
Found at i:2995483 original size:83 final size:87
Alignment explanation
Indices: 2995348--2995540 Score: 261
Period size: 83 Copynumber: 2.3 Consensus size: 87
2995338 GCACCTTCTA
* * *
2995348 GTCCTCAAGGAGTAGGATGCACCCTATTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACACAC
1 GTCCTCAAAGAGTAGGATGCACCCTATTTCCTTTATCTCCTTTGTCCTCAAAGAATAGGACACA-
2995413 TTAGCTTCCTTCTTTT-CC-TTT
65 TTAGCTTCCTTCTTTTCCCTTTT
* *
2995434 GTCCTCAAAGAGCAGGATGCA-TCT-TTTCCTTT-TCTCCTTTGTCCTCAAAGAATAGGACACAT
1 GTCCTCAAAGAGTAGGATGCACCCTATTTCCTTTATCTCCTTTGTCCTCAAAGAATAGGACACAT
***
2995496 TTTTTTCCTTCTTTTCCCCTTTT
66 TAGCTTCCTTCTTTT-CCCTTTT
2995519 GTCCTCAAAGAGTAGGATGCAC
1 GTCCTCAAAGAGTAGGATGCAC
2995541 TTCATTTTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
82 13 0.14
83 27 0.29
84 10 0.11
85 25 0.27
86 19 0.20
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (87 bp):
GTCCTCAAAGAGTAGGATGCACCCTATTTCCTTTATCTCCTTTGTCCTCAAAGAATAGGACACAT
TAGCTTCCTTCTTTTCCCTTTT
Found at i:2995774 original size:217 final size:219
Alignment explanation
Indices: 2995374--2995843 Score: 609
Period size: 217 Copynumber: 2.2 Consensus size: 219
2995364 ATGCACCCTA
* *
2995374 TTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACACACTTAGCTTCCTTCTTTTCCTTTGTCCT
1 TTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACACACTGAACTTCCTTCTTTTCCTTTGTCCT
* *
2995439 CAAAGAGCAGGATGCATCTTTTCCTTTTCTCCTTTGTCCTCAAAGAATAGGACACATTTTTTTCC
66 CAAAGAGCAGGATGCATCTTTTCATTTTCTCCTTTGTCCTCAAAGAATAGGACACATTTATTTCC
** * * **
2995504 TTCTTTTCCCCTTTTGTCCTCAAAGAGTAGGATGCACTTCATTTTTTTTCTTTTCCTCTCTAGTC
131 TTCTTTTCCCCTTTTGTCCTCAAAGAACAAGATGCACTTCAATTTCCTTCTTTTCCTCTCTAGTC
2995569 CTTAAACAGGAGGACGTACTTTAT
196 CTTAAACAGGAGGACGTACTTTAT
* *
2995593 TTTCCTTT-TTT-TTTTGTCCTCAAAGAGTAGGATACACTGAACTTCCTTCTTTTCCTTTGTCCT
1 TTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACACACTGAACTTCCTTCTTTTCCTTTGTCCT
* *
2995656 CAATGAGTAGGATGCA-CTTTTTCATTTTCTCCTTTGTCCTCAAAGAGA-AGGACACATTCTATT
66 CAAAGAGCAGGATGCATC-TTTTCATTTTCTCCTTTGTCCTCAAAGA-ATAGGACACATT-TATT
* * *
2995719 TCCTTCTTTTCCCTTTTTTTCCTCAAAGAACAAGATGCACTT-AATTTCCTTCTTTTCC-CTTTT
128 TCCTTCTTTTCCCCTTTTGTCCTCAAAGAACAAGATGCACTTCAATTTCCTTCTTTTCCTC-TCT
* * **
2995782 A-T-CTTCAAAGAGCAGGACACACTTTAT
192 AGTCCTT-AAACAGGAGGACGTACTTTAT
** *
2995809 TCGCC-TT-TTTCCTTTGTCCTCAAAGAGCAGGACAC
1 TTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACAC
2995844 CTTTTCCTTT
Statistics
Matches: 219, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
215 8 0.04
216 44 0.20
217 115 0.53
218 44 0.20
219 8 0.04
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (219 bp):
TTTCCTTTATTTCCTTTGTCCTCAAAGAGTAGGACACACTGAACTTCCTTCTTTTCCTTTGTCCT
CAAAGAGCAGGATGCATCTTTTCATTTTCTCCTTTGTCCTCAAAGAATAGGACACATTTATTTCC
TTCTTTTCCCCTTTTGTCCTCAAAGAACAAGATGCACTTCAATTTCCTTCTTTTCCTCTCTAGTC
CTTAAACAGGAGGACGTACTTTAT
Found at i:2995950 original size:60 final size:61
Alignment explanation
Indices: 2995824--2995960 Score: 197
Period size: 60 Copynumber: 2.3 Consensus size: 61
2995814 TTTTTCCTTT
* *
2995824 GTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTA
* * * *
2995885 ATCCTCAAAGAGTAGGACGCCTTCTCCTTTCAAAG-CCTACA-TAGTTGGTGGCACCTTCTA
1 GTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGTCC-ACACAAGTTGGTGGCACCTTCTA
2995945 GTCCTCAAAGAGCAGG
1 GTCCTCAAAGAGCAGG
2995961 GCGCACTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 34 0.51
61 33 0.49
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTCTA
Found at i:2996011 original size:43 final size:42
Alignment explanation
Indices: 2995945--2996304 Score: 178
Period size: 43 Copynumber: 8.4 Consensus size: 42
2995935 GCACCTTCTA
* *
2995945 GTCCTCAAAGAGCAGGGCGCACTTTATTTACTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTT-CTTTTTTTCCTTT
* * *
2995988 GTCCTCAAAGAGCAGGACACACTTAACTTCCTTCTTTTT-TTTT
1 GTCCTCAAAGAGCAGGACACACTTTA-TTTCTT-TTTTTCCTTT
* **** * * **
2996031 GTCCTCGAAGAGCAGGATGTGC-CT-TTTCCTTTTCACCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCTTTTTTTCCTTT
** *
2996071 GTCCTCAAAGAATAGGACACA-TTCCATTTCTTTCTTTTCCCCTTTT
1 GTCCTCAAAGAGCAGGACACACTT-TATTTCTTT-TTTT--CC-TTT
* * * *
2996117 GTCCTTAAAGAACAGGACACA-TTCCATTTCCTTCTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACACACTT-TATTT-CTT-TTTTTCC-TTT
* * * * *
2996162 CTCCTCAAAGAGTAGGACGCACTTTA-TTCTCCTTTTTGCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCT-TTTTTTCCTTT
* * ** ** *
2996204 ATCCTCAAGGAGCAGGATGCA-TTTCGTTCTCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCT-TTTTTTCCTTT
* * * * *
2996246 GTCCTAAAAAAGTAGGACACACTTCATAT-TTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCTTTTTTTCCTTT
* *
2996287 GTCTTCGAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
2996305 GTACTCTTTT
Statistics
Matches: 237, Mismatches: 64, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
39 3 0.01
40 21 0.09
41 26 0.11
42 56 0.24
43 58 0.24
44 9 0.04
45 25 0.11
46 32 0.14
47 6 0.03
48 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCTTTTTTTCCTTT
Found at i:2996127 original size:46 final size:46
Alignment explanation
Indices: 2996059--2996179 Score: 174
Period size: 46 Copynumber: 2.7 Consensus size: 46
2996049 GTGCCTTTTC
* *
2996059 CTTTTCACC-TTTGTCCTCAAAGAATAGGACACATTCCATTTCTTT
1 CTTTTCCCCTTTTGTCCTCAAAGAATAGGACACATTCCATTTCCTT
* *
2996104 CTTTTCCCCTTTTGTCCTTAAAGAACAGGACACATTCCATTTCCTT
1 CTTTTCCCCTTTTGTCCTCAAAGAATAGGACACATTCCATTTCCTT
* *
2996150 CTTTT-CCCTTTTCTCCTCAAAGAGTAGGAC
1 CTTTTCCCCTTTTGTCCTCAAAGAATAGGAC
2996180 GCACTTTATT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 29 0.43
46 38 0.57
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (46 bp):
CTTTTCCCCTTTTGTCCTCAAAGAATAGGACACATTCCATTTCCTT
Found at i:2997037 original size:20 final size:20
Alignment explanation
Indices: 2997012--2997086 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2997002 TTTTCACAAT
*
2997012 TTGTATTGATACATTATTCA
1 TTGTATCGATACATTATTCA
*
2997032 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTATTCA
* * *
2997052 TTATATCGATACATTTTTTA
1 TTGTATCGATACATTATTCA
*
2997072 ATGTATCGATACATT
1 TTGTATCGATACATT
2997087 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:3000876 original size:51 final size:51
Alignment explanation
Indices: 3000805--3000921 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
3000795 AAAATAACAA
* * *
3000805 GGTTGGAGTATCCCCGATGGTGAAACA-TCGATATTTTGGAAATAAAAATGG
1 GGTTGGAGTATCCCCAATGGTGAAA-AGTCGATATGTTAGAAATAAAAATGG
** * * *
3000856 GGTTGGAGTATCCTTAATGGTGAAAAGTCGATATGTTAGAAGTAAAACTGT
1 GGTTGGAGTATCCCCAATGGTGAAAAGTCGATATGTTAGAAATAAAAATGG
*
3000907 GGTTGCAGTATCCCC
1 GGTTGGAGTATCCCC
3000922 TCAAAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATGGTGAAAAGTCGATATGTTAGAAATAAAAATGG
Found at i:3000934 original size:79 final size:79
Alignment explanation
Indices: 3000851--3001181 Score: 210
Period size: 79 Copynumber: 4.2 Consensus size: 79
3000841 TGGAAATAAA
* *
3000851 AATGGGGTTGGAGTATCCTTAATGGT-GAAAAGTCGATATGTTAGAAGT-AAAACTGTGGTTGCA
1 AATGGGGTTGGAGTATCCTTAATGGTAGAAAA-TCGATATGTTAGAAATAAAAACAG-GGTTGCA
3000914 GTATCCCCTCAAAAAT
64 GTATCCCCTCAAAAAT
** * * * * * * * *
3000930 AATGGGGTTAAAGTATCCCTGATGGTAGACAATTGGTGTTTTAGAAATAAAAACAGGGTTGGAGT
1 AATGGGGTTGGAGTATCCTTAATGGTAGAAAATCGATATGTTAGAAATAAAAACAGGGTTGCAGT
* *
3000995 ATCCCTTCAGAAAT
66 ATCCCCTCAAAAAT
* ** * ** * * * **
3001009 AATGAGGTTGGAGTATCCTCGATGGTTA-AAAATCG--GTGTTTTAAA-AATATCGGGGTTAAAG
1 AATGGGGTTGGAGTATCCTTAATGG-TAGAAAATCGATATGTTAGAAATAAAAACAGGGTTGCAG
*
3001070 TATCCCCTCGAAAAT
65 TATCCCCTCAAAAAT
* * ** * * * * *
3001085 AATGAGATTGGAGTATCCCCAATGG-GGAAAAATC-AGTGTTTTAGAAATAAAATCAGGGTTGAA
1 AATGGGGTTGGAGTATCCTTAATGGTAG-AAAATCGA-TATGTTAGAAATAAAAACAGGGTTGCA
*
3001148 GTATCACCTCAAAAAT
64 GTATCCCCTCAAAAAT
***
3001164 AACAAGGTTGGAGTATCC
1 AATGGGGTTGGAGTATCC
3001182 CCGATGGTGA
Statistics
Matches: 196, Mismatches: 47, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
76 51 0.26
77 7 0.04
78 7 0.04
79 119 0.61
80 12 0.06
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
AATGGGGTTGGAGTATCCTTAATGGTAGAAAATCGATATGTTAGAAATAAAAACAGGGTTGCAGT
ATCCCCTCAAAAAT
Found at i:3001102 original size:155 final size:155
Alignment explanation
Indices: 3000913--3001196 Score: 374
Period size: 155 Copynumber: 1.8 Consensus size: 155
3000903 CTGTGGTTGC
* * ** * **
3000913 AGTATCCCCTCAAAAATAATGGGGTTAAAGTATCCCTGATGGTAG-ACAATTGGTGTTTTAGAAA
1 AGTATCCCCTCAAAAATAATGAGATTAAAGTATCCCCAATGG-AGAAAAATCAGTGTTTTAGAAA
* * ** * *
3000977 TAAAAACAGGGTTGGAGTATC-CCTTCAGAAATAATGAGGTTGGAGTATCCTCGATGGTTAAAAA
65 TAAAAACAGGGTTGAAGTATCACC-TCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAA
3001041 TCGGTGTTTTAAAAATATCGGGGTTAA
129 TCGGTGTTTTAAAAATATCGGGGTTAA
* ** *
3001068 AGTATCCCCTCGAAAATAATGAGATTGGAGTATCCCCAATGGGGAAAAATCAGTGTTTTAGAAAT
1 AGTATCCCCTCAAAAATAATGAGATTAAAGTATCCCCAATGGAGAAAAATCAGTGTTTTAGAAAT
*
3001133 AAAATCAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAAT
66 AAAAACAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAAT
3001197 TAGTATTTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
154 1 0.01
155 106 0.97
156 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (155 bp):
AGTATCCCCTCAAAAATAATGAGATTAAAGTATCCCCAATGGAGAAAAATCAGTGTTTTAGAAAT
AAAAACAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAATC
GGTGTTTTAAAAATATCGGGGTTAA
Found at i:3001229 original size:51 final size:51
Alignment explanation
Indices: 3001174--3001285 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 51
3001164 AACAAGGTTG
* * *
3001174 GAGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAACCAGGATTA
1 GAGTATCCCCGATAGAGAAAAATTAGTATCTTAGAAATAAAACCAGGATTA
* * * * * *
3001225 GAGTATCCTCGATAGAGAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTG
1 GAGTATCCCCGATAGAGAAAAATTAGTATCTTAGAAATAAAACCAGGATTA
3001276 GAGTATCCCC
1 GAGTATCCCC
3001286 TCGAAAATAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (51 bp):
GAGTATCCCCGATAGAGAAAAATTAGTATCTTAGAAATAAAACCAGGATTA
Found at i:3001230 original size:79 final size:79
Alignment explanation
Indices: 3000913--3001232 Score: 335
Period size: 79 Copynumber: 4.1 Consensus size: 79
3000903 CTGTGGTTGC
* ** * * **
3000913 AGTATCCCCTCAAAAATAATGGGGTTAAAGTATCCCTGATGGT-AGACAATTGGTGTTTTAGAAA
1 AGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGA-AAAATCAGTGTTTTAGAAA
* *
3000977 TAAAAACAGGGTTGG
65 TAAAATCAGGGTTAG
* * * * *
3000992 AGTATCCCTTCAGAAATAATGAGGTTGGAGTATCCTCGATGGTTAAAAATCGGTGTTTT--AAA-
1 AGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAAT
* * *
3001054 AATATCGGGGTTAA
66 AAAATCAGGGTTAG
* * * *
3001068 AGTATCCCCTCGAAAATAATGAGATTGGAGTATCCCCAATGGGGAAAAATCAGTGTTTTAGAAAT
1 AGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAAT
3001133 AAAATCAGGGTT-G
66 AAAATCAGGGTTAG
* ** * *
3001146 AAGTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAA
1 -AGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAA
* *
3001211 TAAAACCAGGATTAG
65 TAAAATCAGGGTTAG
3001226 AGTATCC
1 AGTATCC
3001233 TCGATAGAGA
Statistics
Matches: 197, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
76 59 0.30
77 3 0.02
78 3 0.02
79 130 0.66
80 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (79 bp):
AGTATCCCCTCAAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAAT
AAAATCAGGGTTAG
Found at i:3001250 original size:155 final size:153
Alignment explanation
Indices: 3000965--3001250 Score: 326
Period size: 155 Copynumber: 1.8 Consensus size: 153
3000955 TAGACAATTG
* * ** *
3000965 GTGTTTTAGAAATAAAAACAGGGTTGGAGTATCCCTTCAGAAATAATGAGGTTGGAGTATCCTCG
1 GTGTTTTAGAAATAAAAACAGGGTTGAAGTATCCCTTCAAAAATAACAAGGTTGGAGTATCCCCG
* * * * * * * * *
3001030 ATGGTTAAAAATCGGTGTTTTAAAAATATCGGGGTTAAAGTATCCCCTCGAAAATAATGAGATTG
66 ATGGTGAAAAATCAGTATTTTAAAAAAACCAGGATTAAAGTAT-CCCTCGAAAAGAA-GAAATTG
3001095 GAGTATCCCCAATGGGGAAAAATCA
129 GAGTATCCCCAATGGGGAAAAATCA
*
3001120 GTGTTTTAGAAATAAAATCAGGGTTGAAGTATCACC-TCAAAAATAACAAGGTTGGAGTATCCCC
1 GTGTTTTAGAAATAAAAACAGGGTTGAAGTATC-CCTTCAAAAATAACAAGGTTGGAGTATCCCC
* * *
3001184 GATGGTGAAAAATTAGTATTTTAGAAATAAAACCAGGATTAGAGTAT-CCTCGATAGAGAA-AAA
65 GATGGTGAAAAATCAGTATTTT--AAA-AAAACCAGGATTAAAGTATCCCTCGA-AAAGAAGAAA
3001247 TTGG
126 TTGG
3001251 TGTCTTAGAA
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
155 79 0.73
156 8 0.07
157 7 0.06
158 14 0.13
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (153 bp):
GTGTTTTAGAAATAAAAACAGGGTTGAAGTATCCCTTCAAAAATAACAAGGTTGGAGTATCCCCG
ATGGTGAAAAATCAGTATTTTAAAAAAACCAGGATTAAAGTATCCCTCGAAAAGAAGAAATTGGA
GTATCCCCAATGGGGAAAAATCA
Found at i:3001265 original size:130 final size:130
Alignment explanation
Indices: 3001111--3001358 Score: 309
Period size: 130 Copynumber: 1.9 Consensus size: 130
3001101 CCCCAATGGG
* *
3001111 GAAAAATCAGTGTTTTAGAAATAAAATCAGGGTTGAAGTATCACCTCAAAAATAACA-AGGTTGG
1 GAAAAATCAGTGTCTTAGAAATAAAACCAGGGTTGAAGTATCACCTCAAAAATAACAGA-GTTGG
*
3001175 AGTATCCCCGATGGTGAAAAATTAGTATTTTAGAAATAAAACCAGGATTAGAGTATCCTCGATAG
65 AGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCAGGATTAGAGTATCCTCGATAG
3001240 A
130 A
** * * * * **
3001241 GAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACAGAGTTTTA
1 GAAAAATCAGTGTCTTAGAAATAAAACCAGGGTTGAAGTATCACCTCAAAAATAACAGAGTTGGA
** * * * * * *
3001306 GTATCCTTGATGGTGGAAAATCGGTGTTTTGGAAATAAAATCAGGGTTAGAGT
66 GTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCAGGATTAGAGT
3001359 TTCCCCTCAA
Statistics
Matches: 98, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
130 97 0.99
131 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (130 bp):
GAAAAATCAGTGTCTTAGAAATAAAACCAGGGTTGAAGTATCACCTCAAAAATAACAGAGTTGGA
GTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAACCAGGATTAGAGTATCCTCGATAGA
Found at i:3001309 original size:79 final size:79
Alignment explanation
Indices: 3001222--3001505 Score: 297
Period size: 79 Copynumber: 3.6 Consensus size: 79
3001212 AAAACCAGGA
* * * * *
3001222 TTAGAGTATCCTCGATAGAGAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
1 TTAGAGTATCCTCGATGGTGAAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
3001287 CGAAAATAAC-AGAG
66 CAAAAATAACGAG-G
** * * * * * *
3001301 TTTTAGTATCCTTGATGGTGGAAAATCGGTGTTTTGGAAATAAAATCAGGGTTAGAGTTTCCCCT
1 TTAGAGTATCCTCGATGGTGAAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
3001366 CAAAAATATCGAGG
66 CAAAAATAACGAGG
* *
3001380 TTAGAGTATCC-CTGATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTCGGAGTATCCCC
1 TTAGAGTATCCTC-GATGGTGAAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
*
3001444 TCAAAAATAA-TAGGG
65 TCAAAAATAACGA-GG
* * * *
3001459 TTGGAGTATCC-CTGATGGTGGAAAATCGATATTTTAGAAATGAAAAC
1 TTAGAGTATCCTC-GATGGTGAAAAATCGGTGTTTTAGAAAT-AAAAC
3001506 ATCAATGAAA
Statistics
Matches: 171, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 163 0.95
80 7 0.04
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TTAGAGTATCCTCGATGGTGAAAAATCGGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
CAAAAATAACGAGG
Found at i:3001440 original size:209 final size:209
Alignment explanation
Indices: 3001059--3001441 Score: 513
Period size: 209 Copynumber: 1.8 Consensus size: 209
3001049 TTAAAAATAT
*
3001059 CGGGGTTAAAGTATCCCCTCGAAAATAATGAGATTGGAGTATCCCCAATGGGGAAAAATCAGTGT
1 CGGGGTTAAAGTATCCCCTCGAAAATAAAGAGATTGGAGTATCCCCAATGGGGAAAAATCAGTGT
*
3001124 TTTAGAAATAAAATCAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGG
66 TTTAGAAATAAAATCAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTAGAGTATCCCCGATGG
* *
3001189 TGAAAAATTAGTATTTTAGAAATAAAACCAGGATTAGAGTATCCTCGATAGAGAAAAATTGGTGT
131 TGAAAAATGAGTATTTTAGAAATAAAACCAGGATCAGAGTATCCTCGATAGAGAAAAATTGGTGT
3001254 CTTAGAAATAAAAC
196 CTTAGAAATAAAAC
** ** *** *
3001268 CGGGGTTGGAGTATCCCCTCGAAAATAACAGAG-TTTTAGTATCCTTGATGGTGG-AAAATCGGT
1 CGGGGTTAAAGTATCCCCTCGAAAATAA-AGAGATTGGAGTATCCCCAATGG-GGAAAAATCAGT
* * * * * *
3001331 GTTTTGGAAATAAAATCAGGGTT-AGAGTTTCCCCTCAAAAATATCGAGGTTAGAGTATCCCTGA
64 GTTTTAGAAATAAAATCAGGGTTGA-AGTATCACCTCAAAAATAACAAGGTTAGAGTATCCCCGA
* * *
3001395 TGGTGAAAAATCGA-TGTTTTAGAAATAAAACCAGGGTCGGAGTATCC
128 TGGTGAAAAAT-GAGTATTTTAGAAATAAAACCAGGATCAGAGTATCC
3001442 CCTCAAAAAT
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
208 1 0.01
209 142 0.95
210 6 0.04
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (209 bp):
CGGGGTTAAAGTATCCCCTCGAAAATAAAGAGATTGGAGTATCCCCAATGGGGAAAAATCAGTGT
TTTAGAAATAAAATCAGGGTTGAAGTATCACCTCAAAAATAACAAGGTTAGAGTATCCCCGATGG
TGAAAAATGAGTATTTTAGAAATAAAACCAGGATCAGAGTATCCTCGATAGAGAAAAATTGGTGT
CTTAGAAATAAAAC
Found at i:3001469 original size:288 final size:286
Alignment explanation
Indices: 3000960--3001505 Score: 717
Period size: 288 Copynumber: 1.9 Consensus size: 286
3000950 GATGGTAGAC
* * *
3000960 AATTGGTGTTTTAGAAATAAAAACAGGGTTGGAGTATCCCTTCAGAAATAATGAGGTTGGAGTAT
1 AATTGGTGTCTTAGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAAAGAGGTTGGAGTAT
* * * *
3001025 CCTCGATGGTTAAAAATCGGTGTTTTAAAAATATCGGGGTTAAAGTATCCCCTCGAAAATAATGA
66 CCTCGATGGTGAAAAATCGGTGTTTTAAAAAAATCAGGGTTAAAGTATCCCCTCAAAAATAATGA
* * *
3001090 GATTGGAGTATCCCCAATGGGGAAAAATCAGTGTTTTAGAAATAAAATCAGGGTTGAAGTATCAC
131 GATTAGAGTATCCCCAATGGGGAAAAATCAGTGTTTTAGAAATAAAACCAGGGTCGAAGTATCAC
3001155 CTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAATTAG-TATTTTAGAAAT-AAAACC
196 CTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAA-TAGATATTTTAGAAATGAAAACC
3001218 AGGATTAGAGTATCCTCGATAGAGAAA
260 AGGATTAGAGTATCCTCGATAGAGAAA
* * **
3001245 AATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTATCCCCTC-GAAAATAACAGA-GTTTTAGT
1 AATTGGTGTCTTAGAAATAAAAACAGGGTTGGAGTATCCCCTCAG-AAATAA-AGAGGTTGGAGT
* * * *
3001308 ATCCTTGATGGTGGAAAATCGGTGTTTTGGAAATAAAATCAGGGTTAGAGTTTCCCCTCAAAAAT
64 ATCCTCGATGGTGAAAAATCGGTGTTTT--AAA-AAAATCAGGGTTAAAGTATCCCCTCAAAAAT
* ** * *
3001373 -ATCGAGGTTAGAGTATCCCTGATGGTGAAAAATC-GATGTTTTAGAAATAAAACCAGGGTCGGA
126 AAT-GAGATTAGAGTATCCCCAATGGGGAAAAATCAG-TGTTTTAGAAATAAAACCAGGGTCGAA
* * * * * *
3001436 GTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAAATG
189 GTATCACCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAATAGATATTTTAGAAATG
3001501 AAAAC
254 AAAAC
3001506 ATCAATGAAA
Statistics
Matches: 223, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
284 1 0.00
285 76 0.34
286 2 0.01
287 8 0.04
288 131 0.59
289 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (286 bp):
AATTGGTGTCTTAGAAATAAAAACAGGGTTGGAGTATCCCCTCAGAAATAAAGAGGTTGGAGTAT
CCTCGATGGTGAAAAATCGGTGTTTTAAAAAAATCAGGGTTAAAGTATCCCCTCAAAAATAATGA
GATTAGAGTATCCCCAATGGGGAAAAATCAGTGTTTTAGAAATAAAACCAGGGTCGAAGTATCAC
CTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTGAAAAATAGATATTTTAGAAATGAAAACCA
GGATTAGAGTATCCTCGATAGAGAAA
Found at i:3001538 original size:158 final size:157
Alignment explanation
Indices: 3001222--3001519 Score: 357
Period size: 158 Copynumber: 1.9 Consensus size: 157
3001212 AAAACCAGGA
* * * *
3001222 TTAGAGTATCCTCGATAGAGAAAAATTGGTGTCTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
1 TTAGAGTATCCTCGATAGAGAAAAATCGATGTCTTAGAAATAAAACCAGGGTCGGAGTATCCCCT
* ** * * * * *
3001287 CGAAAATAACAGAGTTTTAGTATCCTTGATGGTGGAAAATCGGTGTTTTGGAAATAAAATCAGGG
66 CAAAAATAACAGAGTTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAAATAAAATCA-GA
* * *
3001352 TTAGAGTTTCCCCTCAAAAATATCGAGG
130 TGAAAGTTTCCCATCAAAAATATCGAGG
* * *
3001380 TTAGAGTATCC-CTGATGGTGAAAAATCGATGTTTTAGAAATAAAACCAGGGTCGGAGTATCCCC
1 TTAGAGTATCCTC-GATAGAGAAAAATCGATGTCTTAGAAATAAAACCAGGGTCGGAGTATCCCC
* *
3001444 TCAAAAATAATAGGGTTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAAATGAAAACATC
65 TCAAAAATAACAGAGTTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAAAT--AAA-ATC
3001509 A-ATGAAAGTTT
127 AGATGAAAGTTT
3001520 TTATGAAGAA
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
157 1 0.01
158 102 0.87
159 7 0.06
160 3 0.03
161 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (157 bp):
TTAGAGTATCCTCGATAGAGAAAAATCGATGTCTTAGAAATAAAACCAGGGTCGGAGTATCCCCT
CAAAAATAACAGAGTTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAAATAAAATCAGAT
GAAAGTTTCCCATCAAAAATATCGAGG
Found at i:3007294 original size:20 final size:19
Alignment explanation
Indices: 3007260--3007336 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
3007250 GTAAAAAGAC
* *
3007260 AAAATATATCAATACATTG
1 AAAATGTATCGATACATTG
*
3007279 AAGAATGTATCGATACATTC
1 AA-AATGTATCGATACATTG
*
3007299 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
3007319 AAAAATGTATCGATACAT
1 -AAAATGTATCGATACAT
3007337 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:3008126 original size:49 final size:45
Alignment explanation
Indices: 3008049--3008163 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 45
3008039 AGATAAGAGG
* *
3008049 AGTGCCAATGTG-TGAGTTTAAGTCCAGCGACATTGGGCTAAGGGAAA
1 AGTGCCAATGTGCTGA-TTCAAGGCCAGCGACATTGGGCTAA--GAAA
3008096 AGTGGACCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGAAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGAAA
* *
3008143 GGTGCCAATATGCTGATTCAA
1 AGTGCCAATGTGCTGATTCAA
3008164 TACTAGCGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
45 16 0.26
46 1 0.02
47 9 0.15
48 1 0.02
49 31 0.51
50 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGAAA
Found at i:3008172 original size:45 final size:48
Alignment explanation
Indices: 3008072--3008172 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 48
3008062 GAGTTTAAGT
* *
3008072 CCAGCGACATTGGGCTAAGGGAAAAGTGGACCAATGTGCTGATTCAAGG
1 CCAGCGACATTGGGCTAA-GGAAAAGTGGACCAATATGCTGATTCAAGA
* *
3008121 CCAGCGACATTGGGCTAA-GAAAGGT-G-CCAATATGCTGATTCAATA
1 CCAGCGACATTGGGCTAAGGAAAAGTGGACCAATATGCTGATTCAAGA
*
3008166 CTAGCGA
1 CCAGCGA
3008173 TGTCAGACAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 22 0.47
46 1 0.02
47 6 0.13
49 18 0.38
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (48 bp):
CCAGCGACATTGGGCTAAGGAAAAGTGGACCAATATGCTGATTCAAGA
Found at i:3008299 original size:32 final size:30
Alignment explanation
Indices: 3008227--3008304 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
3008217 GGGTTTTTTT
* *
3008227 TTTTAAAA-AGGTGCCACTAACTTGTGTGGG
1 TTTTAAAAGA-GTGCCACCAACTCGTGTGGG
* *
3008257 CTTTAAAAGAGTTGCCACCGACTCGTGTGGG
1 TTTTAAAAGAG-TGCCACCAACTCGTGTGGG
3008288 ATTTTAAAAGAGTGCCA
1 -TTTTAAAAGAGTGCCA
3008305 TTAACTTGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 8 0.20
31 22 0.55
32 10 0.25
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (30 bp):
TTTTAAAAGAGTGCCACCAACTCGTGTGGG
Found at i:3008339 original size:28 final size:28
Alignment explanation
Indices: 3008236--3008719 Score: 538
Period size: 28 Copynumber: 16.9 Consensus size: 28
3008226 TTTTTAAAAA
* *
3008236 GGTGCCACTAACTTGTGTGGGCTTTAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
* * * *
3008266 AGTTGCCACCGACTCGTGTGGGATTTTAAAAG
1 -GGTGCCACTGACT--TGTGGG-CTTTGAAAG
* * *
3008298 AGTGCCATTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3008326 GGTACCACTGACTTGTGGCCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3008354 GGTGCCACCGACTTGTAGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
3008382 GATGCCATTGACTTATGGGCATTGATAAG
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
** *
3008411 AATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
3008439 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3008467 GATGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** * *
3008496 AATGCCATTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3008524 GGTGCTACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
3008552 GATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3008580 GGTGCCACTGACTTGTGGGCTTCGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
3008609 AGTTGCCA-TCGACTCGTGGGCTTTGCAAG
1 -GGTGCCACT-GACTTGTGGGCTTTGAAAG
* * *
3008638 GATGCCACTAACTTGTGGACTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
3008666 GGTGCCACTGACTTATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
3008694 GGTGCCACTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
3008720 GAGATGAATG
Statistics
Matches: 382, Mismatches: 63, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
28 266 0.70
29 64 0.17
30 20 0.05
31 24 0.06
32 8 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:3008427 original size:85 final size:84
Alignment explanation
Indices: 3008236--3008719 Score: 581
Period size: 85 Copynumber: 5.6 Consensus size: 84
3008226 TTTTTAAAAA
* * * * * *
3008236 GGTGCCACTAACTTGTGTGGGCTTTAAAAGAGTTGCCACCGACTCGTGTGGGATTTTAAAAGAGT
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG-GGTGCCACCGACT--TGTGGGCTTTGAAAGGA-T
*
3008301 GCCATTAACTTGTGGGCTTTGAAAG
60 GCCACTAACTTGTGGGCTTTGAAAG
* * * *
3008326 GGTACCACTGACTTGTGGCCTTTGAAAGGGTGCCACCGACTTGTAGGCTTTGAAAGGATGCCATT
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
* * *
3008391 GACTTATGGGCATTGATAAG
66 AACTTGTGGGCTTTGA-AAG
** * *
3008411 AATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
*
3008476 GACTTGTGGGCTTTGAAAAG
66 AACTTGTGGGCTTTG-AAAG
** * * * *
3008496 AATGCCATTGACTTGTGGGCTTTGAAAAGGTGCTACTGACTTGTGGGCTTTGAAAGGATGCCACT
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
3008561 AACTTGTGGGCTTTGAAAG
66 AACTTGTGGGCTTTGAAAG
* * * * *
3008580 GGTGCCACTGACTTGTGGGCTTCGAAAAGAGTTGCCATCGACTCGTGGGCTTTGCAAGGATGCCA
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCA
*
3008645 CTAACTTGTGGACTTTGAAAG
64 CTAACTTGTGGGCTTTGAAAG
* *
3008666 GGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAA
3008720 GAGATGAATG
Statistics
Matches: 344, Mismatches: 46, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
84 65 0.19
85 171 0.50
86 72 0.21
87 12 0.03
88 13 0.04
89 1 0.00
90 10 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (84 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACT
AACTTGTGGGCTTTGAAAG
Found at i:3008439 original size:113 final size:114
Alignment explanation
Indices: 3008236--3008719 Score: 616
Period size: 113 Copynumber: 4.2 Consensus size: 114
3008226 TTTTTAAAAA
* * ** * * *
3008236 GGTGCCACTAACTTGTGTGGGCTTT-AAAAGAGTTGCCACCGACTCGTGTGGGATTTTAAAAGAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-GATGCCATTGACT--TGTGGGCTTTGAAAAGAA
* * *
3008300 TGCCATTAACTTGTGGGCTTTGAAAGGGTACCACTGACTTGTGGCCTTTGAAAG
61 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
3008354 GGTGCCACCGACTTGTAGGCTTTG-AAAGGATGCCATTGACTTATGGGCATTGATAAGAATGCCA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAATGCCA
3008418 CTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
66 CTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
3008467 GATGCCACTGACTTGTGGGCTTTGAAAAGAATGCCATTGACTTGTGGGCTTTGAAAAG-GTGCTA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAATGCCA
* * *
3008531 CTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAG
66 CTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
3008580 GGTGCCACTGACTTGTGGGCTTCGAAAAGAGTTGCCATCGACTCGTGGGCTTTG-CAAGGATGCC
1 GGTGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCATTGACTTGTGGGCTTTGAAAAGAATGCC
* *
3008644 ACTAACTTGTGGACTTTGAAAGGGTGCCACTGACTTATGGGCTTTGAAAG
65 ACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
3008694 GGTGCCACTGACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
3008720 GAGATGAATG
Statistics
Matches: 320, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
113 164 0.51
114 122 0.38
115 10 0.03
116 13 0.04
117 1 0.00
118 10 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (114 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCATTGACTTGTGGGCTTTGAAAAGAATGCCA
CTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:3009913 original size:26 final size:26
Alignment explanation
Indices: 3009884--3009943 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
3009874 ACCTTTTCTA
3009884 TTTT-TTTGTT-ATTTTTTCCTTGGTTT
1 TTTTGTTTGTTCATTTTTT--TTGGTTT
*
3009910 TTTTGTTTTTTCATTTTTTTTGGTTT
1 TTTTGTTTGTTCATTTTTTTTGGTTT
3009936 TTTTGTTT
1 TTTTGTTT
3009944 TTTTTTGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 19 0.61
27 5 0.16
28 7 0.23
ACGTcount: A:0.03, C:0.05, G:0.12, T:0.80
Consensus pattern (26 bp):
TTTTGTTTGTTCATTTTTTTTGGTTT
Found at i:3009930 original size:20 final size:20
Alignment explanation
Indices: 3009884--3009950 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 20
3009874 ACCTTTTCTA
*
3009884 TTTTTTTGTTATTTTTTCCT
1 TTTTTTTGTTATTTTTTCAT
* *
3009904 TGGTTTTT-TTGTTTTTTCAT
1 T-TTTTTTGTTATTTTTTCAT
* **
3009924 TTTTTTTGGT-TTTTTTGTT
1 TTTTTTTGTTATTTTTTCAT
3009943 TTTTTTTG
1 TTTTTTTG
3009951 GGTATGAAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 20 0.53
20 13 0.34
21 5 0.13
ACGTcount: A:0.03, C:0.04, G:0.12, T:0.81
Consensus pattern (20 bp):
TTTTTTTGTTATTTTTTCAT
Found at i:3009936 original size:9 final size:8
Alignment explanation
Indices: 3009884--3009947 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
3009874 ACCTTTTCTA
3009884 TTTTTTTG
1 TTTTTTTG
*
3009892 TTATTTT-
1 TTTTTTTG
** *
3009899 TTCCTTGG
1 TTTTTTTG
3009907 TTTTTTTG
1 TTTTTTTG
3009915 TTTTTTCAT-
1 TTTTTT--TG
3009924 TTTTTTTGG
1 TTTTTTT-G
3009933 TTTTTTTG
1 TTTTTTTG
3009941 TTTTTTT
1 TTTTTTT
3009948 TTGGGTATGA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
7 5 0.11
8 25 0.57
9 13 0.30
10 1 0.02
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (8 bp):
TTTTTTTG
Found at i:3009944 original size:26 final size:27
Alignment explanation
Indices: 3009894--3009946 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
3009884 TTTTTTTGTT
3009894 ATTTTTTCCTTGGTTTTTTTGTTTTTTC
1 ATTTTTT-CTTGGTTTTTTTGTTTTTTC
3009922 ATTTTTT-TTGGTTTTTTTGTTTTTT
1 ATTTTTTCTTGGTTTTTTTGTTTTTT
3009947 TTTGGGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 18 0.72
28 7 0.28
ACGTcount: A:0.04, C:0.06, G:0.11, T:0.79
Consensus pattern (27 bp):
ATTTTTTCTTGGTTTTTTTGTTTTTTC
Found at i:3009948 original size:9 final size:9
Alignment explanation
Indices: 3009907--3009948 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
3009897 TTTTCCTTGG
3009907 TTTTTTTG-
1 TTTTTTTGT
**
3009915 TTTTTTCAT
1 TTTTTTTGT
*
3009924 TTTTTTTGG
1 TTTTTTTGT
3009933 TTTTTTTGT
1 TTTTTTTGT
3009942 TTTTTTT
1 TTTTTTT
3009949 TGGGTATGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
8 6 0.22
9 21 0.78
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:3017745 original size:13 final size:13
Alignment explanation
Indices: 3017727--3017798 Score: 75
Period size: 13 Copynumber: 5.9 Consensus size: 13
3017717 TACTCAAATG
3017727 TATCGATACATTA
1 TATCGATACATTA
3017740 TATCGATACATTA
1 TATCGATACATTA
* *
3017753 -CTC-A-A-A-TG
1 TATCGATACATTA
3017761 TATCGATACATTA
1 TATCGATACATTA
3017774 TATCGATACATTA
1 TATCGATACATTA
3017787 TA-CTGATACATT
1 TATC-GATACATT
3017799 GATCTTTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
8 1 0.02
9 3 0.06
10 2 0.04
11 2 0.04
12 4 0.08
13 37 0.76
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3017749 original size:34 final size:34
Alignment explanation
Indices: 3017706--3017786 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
3017696 CAAGGAAATG
3017706 TATCGATACATTACTCAAATGTATCGATACATTA
1 TATCGATACATTACTCAAATGTATCGATACATTA
3017740 TATCGATACATTACTCAAATGTATCGATACATTA
1 TATCGATACATTACTCAAATGTATCGATACATTA
3017774 TATCGATACATTA
1 TATCGATACATTA
3017787 TACTGATACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (34 bp):
TATCGATACATTACTCAAATGTATCGATACATTA
Found at i:3031734 original size:10 final size:10
Alignment explanation
Indices: 3031716--3031773 Score: 55
Period size: 10 Copynumber: 5.5 Consensus size: 10
3031706 CGTCCTCCGG
*
3031716 AAAAGGAAAA
1 AAAAAGAAAA
3031726 AAAAAGAAAA
1 AAAAAGAAAA
*
3031736 AAAACA-CAAA
1 AAAA-AGAAAA
3031746 AAAAAGAAACGAA
1 AAAAAG-AA--AA
3031759 AAAAAGAAAA
1 AAAAAGAAAA
3031769 AAAAA
1 AAAAA
3031774 ACATACAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 1 0.03
10 27 0.68
11 2 0.05
12 2 0.05
13 8 0.20
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:3031760 original size:24 final size:22
Alignment explanation
Indices: 3031722--3031854 Score: 105
Period size: 23 Copynumber: 5.9 Consensus size: 22
3031712 CCGGAAAAGG
*
3031722 AAAAAAAAAGA-AAAAAAACAC
1 AAAAAAAAAAACAAAAAAACAC
*
3031743 AAAAAAAAGAAACGAAAAAAAGA-
1 AAAAAAAA-AAAC-AAAAAAACAC
*
3031766 AAAAAAAAACATACAAACAAACA-
1 AAAAAAAAA-A-ACAAAAAAACAC
3031789 AACAAAAAAAAACAAAACAAA-AC
1 AA-AAAAAAAAACAAAA-AAACAC
*
3031812 AACAAAAAAAAACAAACAAACA-
1 AA-AAAAAAAAACAAAAAAACAC
*
3031834 AACAAAAAACAACAACAAAAA
1 AA-AAAAAAAAACAA-AAAAA
3031855 GGGTCCGGAT
Statistics
Matches: 94, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
21 8 0.09
22 26 0.28
23 43 0.46
24 17 0.18
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAACAAAAAAACAC
Found at i:3031783 original size:8 final size:8
Alignment explanation
Indices: 3031772--3031845 Score: 79
Period size: 8 Copynumber: 9.8 Consensus size: 8
3031762 AAGAAAAAAA
*
3031772 AAACATAC
1 AAACAAAC
3031780 AAACAAAC
1 AAACAAAC
3031788 AAACAAA-
1 AAACAAAC
3031795 AAA-AAAC
1 AAACAAAC
3031802 AAAACAAA-
1 -AAACAAAC
3031810 ACAACAAA-
1 A-AACAAAC
3031818 AAA-AAAC
1 AAACAAAC
3031825 AAACAAAC
1 AAACAAAC
3031833 AAACAAA-
1 AAACAAAC
3031840 AAACAA
1 AAACAA
3031846 CAACAAAAAG
Statistics
Matches: 59, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
6 6 0.10
7 15 0.25
8 35 0.59
9 3 0.05
ACGTcount: A:0.80, C:0.19, G:0.00, T:0.01
Consensus pattern (8 bp):
AAACAAAC
Found at i:3031790 original size:45 final size:48
Alignment explanation
Indices: 3031722--3031853 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 48
3031712 CCGGAAAAGG
* * * *
3031722 AAAAAAAAAGAAA-AAA-AACACAAAAAAAAGAAACGAAA-AAAA-GA-
1 AAAAAAAAACAAACAAACAA-ACAAAAAAAAAAAACAAAACAAAACAAC
*
3031766 AAAAAAAAACATACAAACAAACAAACAAAAAAAAACAAAACAAAACAAC
1 AAAAAAAAACAAACAAACAAACAAA-AAAAAAAAACAAAACAAAACAAC
* *
3031815 AAAAAAAAACAAACAAACAAACAAAAAACAACAACAAAA
1 AAAAAAAAACAAACAAACAAACAAAAAAAAAAAACAAAA
3031854 AGGGTCCGGA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 11 0.15
45 8 0.11
46 14 0.19
47 4 0.05
48 13 0.18
49 24 0.32
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.01
Consensus pattern (48 bp):
AAAAAAAAACAAACAAACAAACAAAAAAAAAAAACAAAACAAAACAAC
Found at i:3031798 original size:49 final size:45
Alignment explanation
Indices: 3031722--3031854 Score: 139
Period size: 45 Copynumber: 3.0 Consensus size: 45
3031712 CCGGAAAAGG
*
3031722 AAAAAAAAAGAAA-AAA-AACACAAA-AAAAAGAAACGAAAAAAAGAA-
1 AAAAAAAAA-AAACAAACAA-ACAAACAAAAAAAAAC-AAAAAAA-AAC
* * *
3031767 AAAAAAAACATACAAACAAACAAACAAAAAAAAACAAAACAAAAC
1 AAAAAAAAAAAACAAACAAACAAACAAAAAAAAACAAAAAAAAAC
* * *
3031812 AACAAAAAAAAACAAACAAACAAACAAAAAACAACAACAAAAA
1 AAAAAAAAAAAACAAACAAACAAACAAAAAAAAACAAAAAAAA
3031855 GGGTCCGGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
44 4 0.05
45 59 0.80
46 11 0.15
ACGTcount: A:0.82, C:0.14, G:0.03, T:0.01
Consensus pattern (45 bp):
AAAAAAAAAAAACAAACAAACAAACAAAAAAAAACAAAAAAAAAC
Found at i:3031854 original size:1 final size:1
Alignment explanation
Indices: 3031722--3031842 Score: 53
Period size: 1 Copynumber: 121.0 Consensus size: 1
3031712 CCGGAAAAGG
* * * * ** * * * * *
3031722 AAAAAAAAAGAAAAAAAACACAAAAAAAAGAAACGAAAAAAAGAAAAAAAAAACATACAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * * *
3031787 CAAACAAAAAAAAACAAAACAAAACAACAAAAAAAAACAAACAAACAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3031843 CAACAACAAA
Statistics
Matches: 79, Mismatches: 41, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:3033237 original size:28 final size:28
Alignment explanation
Indices: 3033168--3033356 Score: 207
Period size: 28 Copynumber: 6.6 Consensus size: 28
3033158 TCCTCACCTT
* * *
3033168 TTCCAAACCCCACAAGTCAGTGGCATCTT
1 TTCCAAAGCCCACAAGTCAGTGGCAAC-C
*
3033197 TTCCAAAACCCACAAGTCAGTGGCAACC
1 TTCCAAAGCCCACAAGTCAGTGGCAACC
* *
3033225 TTCCAAAGCCCACAAGTTAGTGGCACCC
1 TTCCAAAGCCCACAAGTCAGTGGCAACC
3033253 TTTTCCAAAGCCCACAAGTCAGTGGCAACC
1 --TTCCAAAGCCCACAAGTCAGTGGCAACC
* * * * * *
3033283 TTCAAAAGCCCATAAGTCCGTGGTATCTT
1 TTCCAAAGCCCACAAGTCAGTGGCAAC-C
*
3033312 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCCAAAGCCCACAAGTCAGTGGCAACC
* *
3033340 TTCAAAAGCACACAAGT
1 TTCCAAAGCCCACAAGT
3033357 TGGTGCAACC
Statistics
Matches: 137, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
28 63 0.46
29 48 0.35
30 26 0.19
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (28 bp):
TTCCAAAGCCCACAAGTCAGTGGCAACC
Found at i:3033320 original size:87 final size:87
Alignment explanation
Indices: 3033163--3033341 Score: 227
Period size: 87 Copynumber: 2.1 Consensus size: 87
3033153 GACATTCCTC
* *
3033163 ACCTTTTCCAAACCCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTCAGTGGCAACCTTC
1 ACCTTTTCCAAACCCCACAAGTCAGTGGCAACTCTTCCAAAACCCACAAGTCAGTGGCAACCTTC
* *
3033228 CAAAGCCCACAAGTTAGTGGCA
66 AAAAGCCCACAAGTCAGTGGCA
* * * * * * *
3033250 CCCTTTTCCAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAAGCCCATAAGTCCGTGGTATCTTT
1 ACCTTTTCCAAACCCCACAAGTCAGTGGCAACTCTTCCAAAA-CCCACAAGTCAGTGGCAAC-CT
3033313 TCAAAAGCCCACAAGTCAGTGGCA
64 TCAAAAGCCCACAAGTCAGTGGCA
3033337 ACCTT
1 ACCTT
3033342 CAAAAGCACA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 5 0.06
86 17 0.22
87 56 0.72
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (87 bp):
ACCTTTTCCAAACCCCACAAGTCAGTGGCAACTCTTCCAAAACCCACAAGTCAGTGGCAACCTTC
AAAAGCCCACAAGTCAGTGGCA
Found at i:3033334 original size:115 final size:114
Alignment explanation
Indices: 3033176--3033382 Score: 310
Period size: 115 Copynumber: 1.8 Consensus size: 114
3033166 TTTTCCAAAC
* *
3033176 CCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTCAGTGGCAACCTTCCAAAGCCCACAAG
1 CCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAG
*
3033241 TTAGTGGC-ACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
66 TTAGT-GCAACCCTTTT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* * *
3033291 CCCATAAGTCCGTGGTATCTTTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCACACAA
1 CCCACAAGTCAGTGGCATCTTTTCCAAAA-CCCACAAGTCAGTGGCAACCTTCAAAAGCACACAA
*
3033355 GTTGGTGCAACCCTTTTAAAAGCCCACA
65 GTTAGTGCAACCCTTTTAAAAGCCCACA
3033383 TAAGTTGGTG
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
114 17 0.20
115 66 0.80
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (114 bp):
CCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTCAGTGGCAACCTTCAAAAGCACACAAG
TTAGTGCAACCCTTTTAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
Found at i:3033340 original size:57 final size:57
Alignment explanation
Indices: 3033176--3033356 Score: 265
Period size: 57 Copynumber: 3.2 Consensus size: 57
3033166 TTTTCCAAAC
*
3033176 CCCACAAGTCAGTGGCATCTTTTCCAAAA-CCCACAAGTCAGTGGCAACCTTCCAAAG
1 CCCACAAGTCAGTGGCATCTTTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* * *
3033233 CCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 CCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* * *
3033291 CCCATAAGTCCGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
*
3033348 CACACAAGT
1 CCCACAAGT
3033357 TGGTGCAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
57 65 0.59
58 45 0.41
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (57 bp):
CCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
Found at i:3033369 original size:28 final size:28
Alignment explanation
Indices: 3033311--3033392 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
3033301 CGTGGTATCT
* **
3033311 TTTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTTCAAAAGCACACAAGTTGGT-GCAACC
3033340 -TTCAAAAGCACACAAGTTGGTGCAACCC
1 TTTCAAAAGCACACAAGTTGGTGCAA-CC
* *
3033368 TTTTAAAAGCCCACATAAGTTGGTG
1 TTTCAAAAG--CACACAAGTTGGTG
3033393 GCATCTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.09
28 20 0.45
29 7 0.16
31 13 0.30
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (28 bp):
TTTCAAAAGCACACAAGTTGGTGCAACC
Found at i:3033376 original size:57 final size:57
Alignment explanation
Indices: 3033176--3033382 Score: 242
Period size: 57 Copynumber: 3.6 Consensus size: 57
3033166 TTTTCCAAAC
* * *
3033176 CCCACAAGTCAGTGGCA-TCTTTTCCAAAA-CCCACAAGTCAGTGGCAACCTTCCAAAG
1 CCCACAAGTTAGT-GCACCCTTTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
*
3033233 CCCACAAGTTAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 CCCACAAGTTAGT-GCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* ** * *
3033291 CCCATAAGTCCGTGGTA-TCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
1 CCCACAAGTTAGT-GCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
* *
3033348 CACACAAGTTGGTGCAACCCTTTT-AAAAGCCCACA
1 CCCACAAGTTAGTGC-ACCCTTTTCAAAAGCCCACA
3033383 TAAGTTGGTG
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
56 1 0.01
57 79 0.61
58 50 0.38
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (57 bp):
CCCACAAGTTAGTGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAG
Found at i:3033476 original size:52 final size:52
Alignment explanation
Indices: 3033409--3033701 Score: 348
Period size: 52 Copynumber: 5.8 Consensus size: 52
3033399 TCTTCTAAAA
*
3033409 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
* *
3033461 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
* **
3033510 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
* * * *
3033562 CCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTCAA-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT-AAGT
* * * ***
3033614 CCAATGTCGCCGGCCTTGAATCAGCACATTGGTTGC--T-TCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
* * * *
3033663 CCGATATCGTTGGTCTTGAATCAGCATATTGGCATCTTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
3033702 AATATTCCTA
Statistics
Matches: 209, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.01
49 81 0.39
50 1 0.00
51 1 0.00
52 122 0.58
53 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (52 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGT
Found at i:3033584 original size:101 final size:103
Alignment explanation
Indices: 3033406--3033645 Score: 351
Period size: 101 Copynumber: 2.3 Consensus size: 103
3033396 TCTTCTTCTA
* * **
3033406 AAACCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGC
1 AAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGC
3033471 TGGCCTTGAATCAGCACATTGGCACC-T-TCATCTTT-
66 TGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTC
*
3033506 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCG
1 AA-ACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCG
* *
3033571 CTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTC
65 CTGGCCTTGAATCAGCACATTGGCACCTTC-TCATCTTTC
* * *
3033611 AAACCAATGTCGCCGGCCTTGAATCAGCACATTGG
1 AAACCAATATCGCTGGCCTTGAATCAGCATATTGG
3033646 TTGCTTCATC
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
100 2 0.02
101 82 0.66
102 1 0.01
104 37 0.30
105 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (103 bp):
AAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGC
TGGCCTTGAATCAGCACATTGGCACCTTCTCATCTTTC
Found at i:3033655 original size:101 final size:97
Alignment explanation
Indices: 3033406--3033696 Score: 325
Period size: 101 Copynumber: 2.9 Consensus size: 97
3033396 TCTTCTTCTA
*
3033406 AAACCAATATCGCTGGCCTTGAATCAGCATATTGG-CGCCTTTGTCATCTTTAAGTCCAATGTCG
1 AAACCAATATCGCTGGCCTTGAATCAGCATATTGGTTG-C--T-TCATCTTTAAGTCCAATGTCG
*
3033470 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
62 CTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
* * **
3033506 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-CGTCATCTTTAAAACCAATGTC
1 AA-ACCAATATCGCTGGCCTTGAATCAGCATATTGG----TTGCTTCATCTTTAAGTCCAATGTC
*
3033570 GCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTT
61 GCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTT
* * * * * *
3033610 CAAACCAATGTCGCCGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCGATATCGTTG
1 -AAACCAATATCGCTGGCCTTGAATCAGCATATTGGTTGCTTCATCTTTAAGTCCAATGTCGCTG
*
3033675 GTCTTGAATCAGCATATTGGCA
65 GCCTTGAATCAGCATATTGGCA
3033697 TCTTTAATAT
Statistics
Matches: 161, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
100 4 0.02
101 116 0.72
102 1 0.01
104 38 0.24
105 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (97 bp):
AAACCAATATCGCTGGCCTTGAATCAGCATATTGGTTGCTTCATCTTTAAGTCCAATGTCGCTGG
CCTTGAATCAGCATATTGGCACCTTCATCTTT
Found at i:3033682 original size:153 final size:154
Alignment explanation
Indices: 3033399--3033696 Score: 465
Period size: 153 Copynumber: 1.9 Consensus size: 154
3033389 GGTGGCATCT
* * *
3033399 TCTTCTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCA
1 TCTTCTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCA
*
3033464 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
66 ATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
3033529 ATCAGCATATTGGCACCTTCGTCA
131 ATCAGCATATTGGCACCTTCGTCA
* *
3033553 TCTT-TAAAACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTCGTCATCTTTCAA-ACC
1 TCTTCTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT-AAGACC
*** * * *
3033616 AATGTCGCCGGCCTTGAATCAGCACATTGGTTGCTTCATCTTTAAGTCCGATATCGTTGGTCTTG
65 AATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTG
3033681 AATCAGCATATTGGCA
130 AATCAGCATATTGGCA
3033697 TCTTTAATAT
Statistics
Matches: 131, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
153 125 0.95
154 6 0.05
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (154 bp):
TCTTCTAAAACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCA
ATGTCGCCGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
ATCAGCATATTGGCACCTTCGTCA
Done.