Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold6
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: 4312818
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 226954 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:1948510 original size:12 final size:11
Alignment explanation
Indices: 1948493--1948535 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1948483 CAATTTAAAA
1948493 AAAAAAGAATTC
1 AAAAAA-AATTC
*
1948505 AAAAAAACTTC
1 AAAAAAAATTC
*
1948516 -AAAAATATTC
1 AAAAAAAATTC
1948526 AAAAAAAATT
1 AAAAAAAATT
1948536 TCCTTGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 8 0.31
11 12 0.46
12 6 0.23
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:1950510 original size:17 final size:16
Alignment explanation
Indices: 1950490--1950528 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
1950480 TTAAGTTAAG
*
1950490 TTTTTTTTCTCTTTTCC
1 TTTTTTTT-TCTTTTCA
1950507 TTTTCTTTTTCTTTTCA
1 TTTT-TTTTTCTTTTCA
1950524 TTTTT
1 TTTTT
1950529 AGTATAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTCTTTTCA
Found at i:1955628 original size:22 final size:19
Alignment explanation
Indices: 1955598--1955643 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
1955588 TTCTGTTTGC
*
1955598 CCTTTTGGCACATTCTATTAG
1 CCTTTTGG--CATTCTACTAG
1955619 CCTTTGTGGCATTCTACTAG
1 CCTTT-TGGCATTCTACTAG
1955639 CCTTT
1 CCTTT
1955644 ATGGTGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 15 0.65
21 5 0.22
22 3 0.13
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (19 bp):
CCTTTTGGCATTCTACTAG
Found at i:1957890 original size:22 final size:24
Alignment explanation
Indices: 1957858--1957901 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1957848 TTTAATTAAG
*
1957858 TTTTTATTTTCTT-TTTAAAATAT
1 TTTTTATTTTCTTGTTCAAAATAT
1957881 TTTTTA-TTTCTTGTTCAAAAT
1 TTTTTATTTTCTTGTTCAAAAT
1957902 TGGATTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTTATTTTCTTGTTCAAAATAT
Found at i:1964808 original size:5 final size:5
Alignment explanation
Indices: 1964791--1964838 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
1964781 CTACTGTTAT
* *
1964791 AAAAG AAAA- AAAAG AAAAAG AAAAT AATA- AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1964839 AACAAGTACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.19
5 25 0.68
6 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.04
Consensus pattern (5 bp):
AAAAG
Found at i:1969735 original size:11 final size:11
Alignment explanation
Indices: 1969713--1969759 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
1969703 TTATTAAGAG
1969713 AAATATATGTTA
1 AAATA-ATGTTA
1969725 AAATAATGTTA
1 AAATAATGTTA
* *
1969736 AATTATTGTTA
1 AAATAATGTTA
1969747 AAAT-ATGTTA
1 AAATAATGTTA
1969757 AAA
1 AAA
1969760 CATAAAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 8 0.26
11 18 0.58
12 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (11 bp):
AAATAATGTTA
Found at i:1973188 original size:22 final size:22
Alignment explanation
Indices: 1973144--1973230 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 22
1973134 GTACGGGTTT
* *
1973144 AACACTTTTGTGCT-TTCTATTC
1 AACACTTTGGTGCTCTT-TGTTC
1973166 AACACTTTGGTGCTCTTTGTTC
1 AACACTTTGGTGCTCTTTGTTC
** * **
1973188 AGTACTTTGGTACTCCCTGTTC
1 AACACTTTGGTGCTCTTTGTTC
* *
1973210 AGCACTTCGGTGCTCTTTGTT
1 AACACTTTGGTGCTCTTTGTT
1973231 TAGTACTTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 50 0.96
23 2 0.04
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (22 bp):
AACACTTTGGTGCTCTTTGTTC
Found at i:1973222 original size:44 final size:44
Alignment explanation
Indices: 1973163--1973269 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
1973153 GTGCTTTCTA
*
1973163 TTCAACACTTTGGTGCTCTTTGTTCAGTACTTTGGTACTCCCTG
1 TTCAACACTTCGGTGCTCTTTGTTCAGTACTTTGGTACTCCCTG
* * **
1973207 TTCAGCACTTCGGTGCTCTTTGTTTAGTACTTTGGTACTCATTG
1 TTCAACACTTCGGTGCTCTTTGTTCAGTACTTTGGTACTCCCTG
* * *
1973251 ATAAACACTTCAGTGCTCT
1 TTCAACACTTCGGTGCTCT
1973270 CTTTTTAGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (44 bp):
TTCAACACTTCGGTGCTCTTTGTTCAGTACTTTGGTACTCCCTG
Found at i:1973238 original size:22 final size:22
Alignment explanation
Indices: 1973168--1973313 Score: 96
Period size: 22 Copynumber: 6.6 Consensus size: 22
1973158 TTCTATTCAA
* *
1973168 CACTTTGGTGCTCTTTGTTCAG
1 CACTTCGGTGCTCTTTGTTTAG
* * * ** *
1973190 TACTTTGGTACTCCCTGTTCAG
1 CACTTCGGTGCTCTTTGTTTAG
1973212 CACTTCGGTGCTCTTTGTTTAG
1 CACTTCGGTGCTCTTTGTTTAG
* * * * * * *
1973234 TACTTTGGTACTCATTGATAAA
1 CACTTCGGTGCTCTTTGTTTAG
*
1973256 CACTTCAGTGCTCTCTT-TTTAG
1 CACTTCGGTGCTCT-TTGTTTAG
* * *
1973278 AACTTCAGTTCTCTTTGTTTAG
1 CACTTCGGTGCTCTTTGTTTAG
*
1973300 CACTACGGTGCTCT
1 CACTTCGGTGCTCT
1973314 CTACTATGGT
Statistics
Matches: 91, Mismatches: 31, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
21 2 0.02
22 87 0.96
23 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (22 bp):
CACTTCGGTGCTCTTTGTTTAG
Found at i:1973277 original size:44 final size:44
Alignment explanation
Indices: 1973178--1973282 Score: 113
Period size: 44 Copynumber: 2.3 Consensus size: 44
1973168 CACTTTGGTG
* * * * *
1973178 CTCTTTGTTCAGTACTTTGGTACTCCCTGTTCAGCACTTCGGTGCT
1 CTCTTT-TT-AGTACTTTGGTACTCACTGATAAACACTTCAGTGCT
*
1973224 CT-TTGTTTAGTACTTTGGTACTCATTGATAAACACTTCAGTGCT
1 CTCTT-TTTAGTACTTTGGTACTCACTGATAAACACTTCAGTGCT
*
1973268 CTCTTTTTAGAACTT
1 CTCTTTTTAGTACTT
1973283 CAGTTCTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
44 41 0.82
45 6 0.12
46 3 0.06
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (44 bp):
CTCTTTTTAGTACTTTGGTACTCACTGATAAACACTTCAGTGCT
Found at i:1976600 original size:50 final size:50
Alignment explanation
Indices: 1976488--1976674 Score: 171
Period size: 50 Copynumber: 3.8 Consensus size: 50
1976478 GGGTAAAGAG
* ** * * *
1976488 ATCCCATGTAAGACAATGTCTGGGACATGGTGTTGGCACCGAGATGAGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAA
* *** * *
1976538 GTCCCCCCTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAA
* * * * ** *
1976588 CTCCCATGTAAGACCATATCTGGGATATGACATTGGCA-GTACAGGA-AA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAA
*
1976636 TATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
1976675 TGTTATTATC
Statistics
Matches: 108, Mismatches: 28, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
48 2 0.02
49 37 0.34
50 69 0.64
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATGAGAA
Found at i:1982975 original size:21 final size:21
Alignment explanation
Indices: 1982951--1982993 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1982941 ACATGATTTG
*
1982951 TATGTTATATGCTAAGTATGA
1 TATGTTATATGCCAAGTATGA
1982972 TATGTTATATGCCAAGTATGA
1 TATGTTATATGCCAAGTATGA
1982993 T
1 T
1982994 TTGAATCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (21 bp):
TATGTTATATGCCAAGTATGA
Found at i:1991056 original size:50 final size:50
Alignment explanation
Indices: 1990990--1991167 Score: 173
Period size: 50 Copynumber: 3.6 Consensus size: 50
1990980 TATGAGAGGC
* * ***
1990990 CCCATGTAAGACCATGTTTGGGACATGG-AGTTGGCACCGAGATGAGGGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCA-TAGGCACCGAGATGAGAACT
* *
1991040 CCCTTGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACT
* * * * ** * *
1991090 CCCATGTAAGACCATATCTGGGATATGTCATTGGCA-ATACAGGA-AACAT
1 CCCATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAAC-T
*
1991139 CCCATGTAAGACCATGTCTGGGATATGGC
1 CCCATGTAAGACCATGTCTGGGACATGGC
1991168 TTTGTCATGT
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.03
49 32 0.30
50 72 0.67
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATAGGCACCGAGATGAGAACT
Found at i:1991400 original size:20 final size:20
Alignment explanation
Indices: 1991375--1991423 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1991365 TGAGTTATTT
1991375 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
1991395 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
1991415 AAG-AAGCAA
1 AAGTAAGCAA
1991424 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:1998394 original size:3 final size:3
Alignment explanation
Indices: 1998388--1998418 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1998378 TTGTTGTTGT
1998388 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1998419 CTTGCTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:2001014 original size:13 final size:12
Alignment explanation
Indices: 2000991--2001020 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2000981 ACTATTAATA
2000991 TAATAAATTATT
1 TAATAAATTATT
2001003 TCAATAAATTATT
1 T-AATAAATTATT
2001016 TAATA
1 TAATA
2001021 TTATAANNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:2003684 original size:161 final size:162
Alignment explanation
Indices: 2003496--2003820 Score: 643
Period size: 161 Copynumber: 2.0 Consensus size: 162
2003486 ATTATAAAAT
2003496 TTAAGTAAATATTAATTATATTTGTAAAAATAATTTTAGTTTATAATATTATTTATTATAAATAT
1 TTAAGTAAATATTAATTATATTTGTAAAAATAATTTTAGTTTATAATATTATTTATTATAAATAT
2003561 TCTTTTAATTTATTTTTAAAAATGTAAAGGAAAATGATCAAAAGAAAATTTTTAAAAATACAAAA
66 TCTTTTAATTTATTTTTAAAAATGTAAAGGAAAATGATCAAAAGAAAATTTTTAAAAATACAAAA
2003626 AGATAAGAAAAATTAAAAAGACGAAAAGATAA
131 AGATAAGAAAAATTAAAAAGACGAAAAGATAA
2003658 TTAAGTAAATA-TAATTATATTTGTAAAAATAATTTTAGTTTATAATATTATTTATTATAAATAT
1 TTAAGTAAATATTAATTATATTTGTAAAAATAATTTTAGTTTATAATATTATTTATTATAAATAT
2003722 TCTTTTAATTTATTTTTAAAAATGTAAAGGAAAATGATCAAAAGAAAATTTTTAAAAATACAAAA
66 TCTTTTAATTTATTTTTAAAAATGTAAAGGAAAATGATCAAAAGAAAATTTTTAAAAATACAAAA
2003787 AGATAAGAAAAATTAAAAAGACGAAAAGATAA
131 AGATAAGAAAAATTAAAAAGACGAAAAGATAA
2003819 TT
1 TT
2003821 TGACTTACAC
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
161 152 0.93
162 11 0.07
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.37
Consensus pattern (162 bp):
TTAAGTAAATATTAATTATATTTGTAAAAATAATTTTAGTTTATAATATTATTTATTATAAATAT
TCTTTTAATTTATTTTTAAAAATGTAAAGGAAAATGATCAAAAGAAAATTTTTAAAAATACAAAA
AGATAAGAAAAATTAAAAAGACGAAAAGATAA
Found at i:2005636 original size:7 final size:7
Alignment explanation
Indices: 2005620--2005649 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
2005610 TTGTGGTTTG
2005620 TGGACTTT
1 TGGAC-TT
2005628 TGGACTT
1 TGGACTT
2005635 TGGACTT
1 TGGACTT
2005642 TGGACTT
1 TGGACTT
2005649 T
1 T
2005650 ACCTCTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (7 bp):
TGGACTT
Found at i:2006804 original size:27 final size:27
Alignment explanation
Indices: 2006766--2006820 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
2006756 TAGACTAAGC
*
2006766 ACTTTAACAATTCTGAGAATAAACACA
1 ACTTTAACAATTCCGAGAATAAACACA
2006793 ACTTTAACAATTCCGAGAATAAACACA
1 ACTTTAACAATTCCGAGAATAAACACA
2006820 A
1 A
2006821 TCATAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (27 bp):
ACTTTAACAATTCCGAGAATAAACACA
Found at i:2012458 original size:48 final size:48
Alignment explanation
Indices: 2012369--2012461 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
2012359 ACCACACCAT
* * *
2012369 TTGTGGACAAGCCACCACATAAATGTCGATTAACGGACACATAACACA
1 TTGTGGACAAACCACCACATAAATGTAGATAAACGGACACATAACACA
* * *
2012417 TTGTGGACAAACCATCACAT-AATCGTAGATAAACTGCCACATAAC
1 TTGTGGACAAACCACCACATAAAT-GTAGATAAACGGACACATAAC
2012462 TTCCACCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 3 0.08
48 35 0.92
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (48 bp):
TTGTGGACAAACCACCACATAAATGTAGATAAACGGACACATAACACA
Found at i:2026432 original size:127 final size:128
Alignment explanation
Indices: 2026206--2026462 Score: 507
Period size: 127 Copynumber: 2.0 Consensus size: 128
2026196 TGTAACACCC
2026206 CTAACAAGTGACTGTCACCAGGTTAGGGTTACAGAGTATTACAATGAGATATTAAACCTTTAGCA
1 CTAACAAGTGACTGTCACCAGGTTAGGGTTACAGAGTATTACAATGAGATATTAAACCTTTAGCA
2026271 TTACATAGAAACACTATTCAAGAATAATTATAAATAAAAAAA-TGATTTATAATTAACATACA
66 TTACATAGAAACACTATTCAAGAATAATTATAAATAAAAAAATTGATTTATAATTAACATACA
2026333 CTAACAAGTGACTGTCACCAGGTTAGGGTTACAGAGTATTACAATGAGATATTAAACCTTTAGCA
1 CTAACAAGTGACTGTCACCAGGTTAGGGTTACAGAGTATTACAATGAGATATTAAACCTTTAGCA
2026398 TTACATAGAAACACTATTCAAGAATAATTATAAATAAAAAAATTGATTTATAATTAACATACA
66 TTACATAGAAACACTATTCAAGAATAATTATAAATAAAAAAATTGATTTATAATTAACATACA
2026461 CT
1 CT
2026463 TATGGACCCT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 107 0.83
128 22 0.17
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (128 bp):
CTAACAAGTGACTGTCACCAGGTTAGGGTTACAGAGTATTACAATGAGATATTAAACCTTTAGCA
TTACATAGAAACACTATTCAAGAATAATTATAAATAAAAAAATTGATTTATAATTAACATACA
Found at i:2037849 original size:60 final size:60
Alignment explanation
Indices: 2037765--2038068 Score: 317
Period size: 60 Copynumber: 5.1 Consensus size: 60
2037755 AATCTACCAT
* * * * *
2037765 AAAGGCGTC-TTTTTATTCAGTACTCACCCCAAAGACTTTCCTTTCCAAAGTTTTGCCAC
1 AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCAC
* * * * * * *
2037824 AAGGGCGTCATTTTCATTCACTACTCACCATAAAGGCTTTCCTTT-CAAGAGTTTTTCTAC
1 AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAA-AGTTTTGCCAC
* * * *
2037884 AAAAGGCATCCTTTCCATTCAGTACTTGCCACAAAGGCTTTCCTTTCCAGA-TATTTGCCAC
1 -AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGT-TTTGCCAC
* * * * *
2037945 AAATGCATCATTTTCATTCAGTACTTGCCACAAAGGCTTCCCTTTCCAGATTTTTGCCAC
1 AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCAC
* * * * * *
2038005 AAAGACATCCTTTTCATTTAGTACTCGCCATAAAGGCTTTCATTTCCAAAGATTTGCCAC
1 AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCAC
2038065 AAAG
1 AAAG
2038069 TCTTTCAATT
Statistics
Matches: 205, Mismatches: 34, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
59 11 0.05
60 147 0.72
61 45 0.22
62 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (60 bp):
AAAGGCATCATTTTCATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCAC
Found at i:2037919 original size:121 final size:120
Alignment explanation
Indices: 2037779--2038068 Score: 350
Period size: 121 Copynumber: 2.4 Consensus size: 120
2037769 GCGTCTTTTT
* * * * *
2037779 ATTCAGTACTCACCCCAAAGACTTTCCTTTCCAAAGTTTTGCCACAAGGGCGTCATTTTCATTCA
1 ATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCACAAAGGCATCATTTTCATTCA
* * * *
2037844 CTACTCACCATAAAGGCTTTCCTTTCAAGAGTTTTT-CTACAAAAGGCATCCTTTCC
66 CTACTCACCACAAAGGCTTCCCTTTCAAGA-TTTTTGCCAC-AAAGACATCCTTTCC
* * *
2037900 ATTCAGTACTTGCCACAAAGGCTTTCCTTTCCAGA-TATTTGCCACAAATGCATCATTTTCATTC
1 ATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGT-TTTGCCACAAAGGCATCATTTTCATTC
* ** * *
2037964 AGTACTTGCCACAAAGGCTTCCCTTTCCAGATTTTTGCCACAAAGACATCCTTTTC
65 ACTACTCACCACAAAGGCTTCCCTTTCAAGATTTTTGCCACAAAGACATCCTTTCC
* * * *
2038020 ATTTAGTACTCGCCATAAAGGCTTTCATTTCCAAAGATTTGCCACAAAG
1 ATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCACAAAG
2038069 TCTTTCAATT
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
120 60 0.42
121 82 0.58
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (120 bp):
ATTCAGTACTCGCCACAAAGGCTTTCCTTTCCAAAGTTTTGCCACAAAGGCATCATTTTCATTCA
CTACTCACCACAAAGGCTTCCCTTTCAAGATTTTTGCCACAAAGACATCCTTTCC
Found at i:2038019 original size:29 final size:29
Alignment explanation
Indices: 2037909--2038019 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
2037899 CATTCAGTAC
*
2037909 TTGCCACAAAGGCTTTCC-TTTCCAGATAT
1 TTGCCACAAAGGC-ATCCTTTTCCAGATAT
* * *
2037938 TTGCCACAAATGCATCATTTTCATTCAG-TAC
1 TTGCCACAAAGGCATCCTTTTC---CAGATAT
* * *
2037969 TTGCCACAAAGGCTTCCCTTTCCAGATTT
1 TTGCCACAAAGGCATCCTTTTCCAGATAT
*
2037998 TTGCCACAAAGACATCCTTTTC
1 TTGCCACAAAGGCATCCTTTTC
2038020 ATTTAGTACT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
28 5 0.08
29 36 0.56
31 20 0.31
32 3 0.05
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (29 bp):
TTGCCACAAAGGCATCCTTTTCCAGATAT
Found at i:2038249 original size:50 final size:50
Alignment explanation
Indices: 2038188--2038285 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
2038178 TTACTTTAGA
* * * *
2038188 TCTTTCCATATGATGCCATAATCCACCAGTTATGGTCTTACACGATATTG
1 TCTTTCCATATGACGCCATAACCCACCAGCTATGATCTTACACGATATTG
*
2038238 TCTTTCCATATGACGCCATAGCCCACCAGCTATGATCTTACACGATAT
1 TCTTTCCATATGACGCCATAACCCACCAGCTATGATCTTACACGATAT
2038286 GATTCTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.33
Consensus pattern (50 bp):
TCTTTCCATATGACGCCATAACCCACCAGCTATGATCTTACACGATATTG
Found at i:2041512 original size:20 final size:20
Alignment explanation
Indices: 2041484--2041521 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2041474 AATTTTCAAT
2041484 ACTTCTATCGACACAAGTCC
1 ACTTCTATCGACACAAGTCC
* *
2041504 ACTTGTATCGATACAAGT
1 ACTTCTATCGACACAAGT
2041522 GGTTTGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (20 bp):
ACTTCTATCGACACAAGTCC
Found at i:2045880 original size:21 final size:21
Alignment explanation
Indices: 2045835--2045878 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2045825 AAAATAATGG
*
2045835 AACAAAATTAAATTGAAGTAA
1 AACAAAATTAAATGGAAGTAA
*
2045856 AACAAAATTAAATAGGCAGTAA
1 AACAAAATTAAAT-GGAAGTAA
2045878 A
1 A
2045879 CATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.20
Consensus pattern (21 bp):
AACAAAATTAAATGGAAGTAA
Found at i:2047018 original size:50 final size:50
Alignment explanation
Indices: 2046864--2047025 Score: 137
Period size: 50 Copynumber: 3.2 Consensus size: 50
2046854 TATGATGTCG
* ** *** * * *
2046864 GGGAAGCAAGATTCGTCGGCGTAGCTTCAATCCGCTCCACTACACCATCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTCCACCACATCGTCA
* * * ** * *
2046914 GGGAAGTATGATTCGCTGTTGTAGCTTCAATCTTTTTAACGACAAT-GTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTCCACCAC-ATCGTCA
* *
2046964 GGGAAGCAAGATTCGCCATTGTAGCTTCAATCTTTTCCACCACATCGTCT
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTCCACCACATCGTCA
*
2047014 GGGAAGTAAGAT
1 GGGAAGCAAGAT
2047026 CTGATGCAAT
Statistics
Matches: 86, Mismatches: 24, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.02
50 83 0.97
51 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTCCACCACATCGTCA
Found at i:2047534 original size:218 final size:218
Alignment explanation
Indices: 2047020--2048336 Score: 1876
Period size: 218 Copynumber: 6.0 Consensus size: 218
2047010 GTCTGGGAAG
* * * * * * *
2047020 TAAGATCTGATGCAATCTACTCTAGTGCAACCTCAGAGAGATAAGATCTATTGTTTTAATCCGCT
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
* *
2047085 CCACTATAACTTCAAGGAGATAGGATTACTGG-TCTCAATCTGCTCCACTGCAAACTCAGGAAGA
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCT-TCAATCTGCTCCACTGCAAACTCAGGAAGA
2047149 TAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGC-TTCTTGGTC
130 TAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
* *
2047213 TGCTCTGCTGCAACCTAAGGGAGA
195 TGCTCCGCTGCAACCTCAGGGAGA
* **
2047237 TAAGACTTGATGCGATCCACTCTGGTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
* *
2047302 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATGTGCTCCACTGCAAACTTA-GAGAGA
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAAACTCAGGA-AGA
* * * *
2047366 TAAGATTCACCATTTTTAGTCTGCCTCACTACAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
130 TAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
2047431 TGCTCCGCTGCAACCTCAGGGAGA
195 TGCTCCGCTGCAACCTCAGGGAGA
* ** *
2047455 TTAGACCTGATGCGATCCGTTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATTCGCT
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
* * ** *
2047520 CCACTGCCACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTATAAACTCAGGGAGAT
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAAACTCAGGAAGAT
*
2047585 AAGATTCACTATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTCT
131 AAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTCT
* * *
2047650 GCTCCGCTGTAACTTCAAGGAGA
196 GCTCCGCTGCAACCTCAGGGAGA
* * * *
2047673 TAAGACCTGATGCGATCCGCTCTACTGCTACTTCAGAGAGATAAGATCTATTATTTGAATTCGCA
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
* * *
2047738 CCACTGCCACTTCAGGGAGATAGGATTACTGGCTTCAATAAT-CTCCACTGCAAACTCAGGAAGA
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAAT-CTGCTCCACTGCAAACTCAGGAAGA
* *
2047802 TAAGATTCACCATCTTCATTCTTCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
130 TAAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
*
2047867 TGCTCCGCTGCAACCTTAGGGAGA
195 TGCTCCGCTGCAACCTCAGGGAGA
* *
2047891 TAAGACCTGATGCGATCCACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCTGCT
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
** * * *
2047956 CCACTGTAACTTCAGGGAGATAGGATTACTGGCTTTAACCTGCTCCACTACAAACTCAGGAAGAT
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAAACTCAGGAAGAT
*
2048021 AAGATTCACCATCTTCATGTCTGCCCCACTACAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
131 AAGATTCACCATCTTCA-GTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTC
*
2048086 TGCTCCGCTGCAACCTCAAGGAGA
195 TGCTCCGCTGCAACCTCAGGGAGA
* * *
2048110 TAAGACTTGATACGATCCACTCTACTGCAACTTTAGAGAGATAAGATCTATTATTTGAATCCGCT
1 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
* * * *
2048175 CTACTACAACTTTAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGAT
66 CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAAACTCAGGAAGAT
* * * * ** *
2048240 AAGATTCACCACCTTC-GATCTGCTCTACTACTGCTT-AGGGAGATAAGA-TCTG-TAATTCTTC
131 AAGATTCACCATCTTCAG-TCTGCCCCACTGCAACTTCAGGGGGATAAGACT-TGCT--TTCTT-
* * *
2048301 GGTCTACTCCTCTGGAACCTCAGGGAGA
191 GGTCTGCTCCGCTGCAACCTCAGGGAGA
2048329 TAAGACCT
1 TAAGACCT
2048337 ACAATCTTCA
Statistics
Matches: 991, Mismatches: 97, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
216 4 0.00
217 178 0.18
218 579 0.58
219 230 0.23
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (218 bp):
TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTGAATCCGCT
CCACTACAACTTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGCAAACTCAGGAAGAT
AAGATTCACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTTCTTGGTCT
GCTCCGCTGCAACCTCAGGGAGA
Found at i:2047565 original size:44 final size:45
Alignment explanation
Indices: 2047077--2048288 Score: 318
Period size: 44 Copynumber: 27.8 Consensus size: 45
2047067 CTATTGTTTT
* ** * * *
2047077 AATCCGCTCCACTATAACTTCAAGGAGATAGGATT-ACT-GGTCTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCT-TC
* * *
2047121 AATCTGCTCCACTGCAAAC-TCAGGAAGATAAGATTCACCATCTTC
1 AATCTGCTCCACTGC-AACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * *
2047166 AGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTT-GCT-TCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGCTTC
** ** * * * *
2047209 GGTCTGCTCTGCTGCAACCTAAGGGAGATAAGACTTGA-T-GCGATC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGC-TTC
* ** * * * *
2047254 CA-CT-CT--GGTGCAACTTCAGAGAGATAAGA-TCTATTA-TTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-ACTAGCTTC
* * * *
2047294 AATCCGCTCCACTACAACTTCAGGGAGATAGGATT-ACTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * ** *
2047338 AATGTGCTCCACTGCAAACTT-AGAGAGATAAGATTCACCATTTTT
1 AATCTGCTCCACTGC-AACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * **
2047383 AGTCTGC-CTCACTACAACTTCAGGGGGATAAGACTT-GCTTTCTT-
1 AATCTGCTC-CACTGCAACTTCAGGGAGATAAGA-TTCACTAGCTTC
** * * * * *
2047427 GGTCTGCTCCGCTGCAACCTCAGGGAGATTAGA--C-CT-GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * * * * *
2047468 GATCCGTTCTACTGCAACTTCAGAGAGATAAGA-TCTATTA-TTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-ACTAGCTTC
* * *
2047512 AAT-TCGCTCCACTGCCACTTCAGGGAGATAGGATT-ACTGGCTTC
1 AATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
** *
2047556 AATCTGCTCCACTATAAAC-TCAGGGAGATAAGATTCACTATCTTC
1 AATCTGCTCCACT-GCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * **
2047601 AGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTT-GCTTTCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGCTTC
** * * * * *
2047645 GGTCTGCTCCGCTGTAACTTCAAGGAGATAAGA--C-CT-GATGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * * * * *
2047686 GATCCGCTCTACTGCTACTTCAGAGAGATAAGA-TCTATTA-TTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-ACTAGCTTC
* * * *
2047730 AAT-TCGCACCACTGCCACTTCAGGGAGATAGGATT-ACTGGCTTC
1 AATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * *
2047774 AATAAT-CTCCACTGCAAAC-TCAGGAAGATAAGATTCACCATCTTC
1 AAT-CTGCTCCACTGC-AACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * * **
2047819 ATTCTTCCCCACTGCAACTTCAGGGGGATAAGACTT-GCTTTCTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGCTTC
** * * *
2047863 GGTCTGCTCCGCTGCAACCTT-AGGGAGATAAGA--C-CT-GATGC
1 AATCTGCTCCACTGCAA-CTTCAGGGAGATAAGATTCACTAGCTTC
* ** ** * * * *
2047904 GATCCACTCTGCTGCAACTTCAGAGAGATAAGA-TCTATTA-TTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-ACTAGCTTC
* * * *
2047948 AATCTGCTCCACTGTAACTTCAGGGAGATAGGATT-ACTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * *
2047992 AACCTGCTCCACTACAAAC-TCAGGAAGATAAGATTCACCATCTTC
1 AATCTGCTCCACTGC-AACTTCAGGGAGATAAGATTCACTAGCTTC
* * * * * **
2048037 ATGTCTGCCCCACTACAACTTCAGGGGGATAAGACTT-GCTTTCTT-
1 A-ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGCTTC
** * * * * *
2048082 GGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACTTGA-TA-CGATC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTAGC-TTC
* * * * * *
2048127 CA-CT-CT--ACTGCAACTTTAGAGAGATAAGA-TCTATTA-TTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-ACTAGCTTC
* * * * * *
2048167 AATCCGCTCTACTACAACTTTAGGGAGATAGGATT-ACTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * *
2048211 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCACCACCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
* * * **
2048256 GATCTGCTCTACTACTGCTT-AGGGAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
2048289 CTGTAATTCT
Statistics
Matches: 839, Mismatches: 249, Indels: 160
0.67 0.20 0.13
Matches are distributed among these distances:
39 2 0.00
40 12 0.01
41 122 0.15
42 7 0.01
43 46 0.05
44 428 0.51
45 182 0.22
46 38 0.05
47 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCACTAGCTTC
Found at i:2049459 original size:18 final size:17
Alignment explanation
Indices: 2049426--2049464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2049416 TTTTATAAAT
2049426 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2049444 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2049461 TGTG
1 TGTG
2049465 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2049716 original size:23 final size:23
Alignment explanation
Indices: 2049689--2049741 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
2049679 AGTGTTATTG
2049689 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
2049712 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2049735 ATCAGTG
1 ATCAGTG
2049742 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:2055487 original size:23 final size:23
Alignment explanation
Indices: 2055454--2055528 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
2055444 GTGTTATTGA
*
2055454 TCAGTGGTAGCTTCGGCTACGTT
1 TCAGTGGTAGCTTCGGCTACATT
*
2055477 TCAGTGTTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
2055500 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
2055523 TCAGTG
1 TCAGTG
2055529 TTGCACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:2058964 original size:20 final size:20
Alignment explanation
Indices: 2058939--2058996 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
2058929 TTTTTTCTCT
2058939 TTTCTTTTTTTCTATTTTTC
1 TTTCTTTTTTTCTATTTTTC
* *
2058959 TTTCTTTTTTTGTTTTTTTC
1 TTTCTTTTTTTCTATTTTTC
2058979 TTT-TTTCTTTTC-ATTTTT
1 TTTCTTT-TTTTCTATTTTT
2058997 TTGATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.03, C:0.12, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTCTTTTTTTCTATTTTTC
Found at i:2058969 original size:28 final size:29
Alignment explanation
Indices: 2058938--2058998 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 29
2058928 TTTTTTTCTC
2058938 TTTTCTTTTTTTCTATTTTTC-TTTC-TTT
1 TTTTCTTTTTTTCT-TTTTTCTTTTCATTT
*
2058966 TTTTGTTTTTTTCTTTTTTCTTTTCATTT
1 TTTTCTTTTTTTCTTTTTTCTTTTCATTT
2058995 TTTT
1 TTTT
2058999 GATTTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.20
28 17 0.57
29 7 0.23
ACGTcount: A:0.03, C:0.11, G:0.02, T:0.84
Consensus pattern (29 bp):
TTTTCTTTTTTTCTTTTTTCTTTTCATTT
Found at i:2059004 original size:28 final size:27
Alignment explanation
Indices: 2058945--2059011 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
2058935 CTCTTTTCTT
*
2058945 TTTTTCTATTTTTCTTTCTTTTTTTGTT
1 TTTTTCT-TTTTTCTTTCTTTTTTTGTA
2058973 TTTTTCTTTTTTCTTTTCATTTTTTTG-A
1 TTTTTCTTTTTTC-TTTC-TTTTTTTGTA
2059001 -TTTTCTTTTTT
1 TTTTTCTTTTTT
2059012 TATTGATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 17 0.47
28 11 0.31
29 8 0.22
ACGTcount: A:0.04, C:0.10, G:0.03, T:0.82
Consensus pattern (27 bp):
TTTTTCTTTTTTCTTTCTTTTTTTGTA
Found at i:2059011 original size:7 final size:7
Alignment explanation
Indices: 2058897--2058989 Score: 68
Period size: 7 Copynumber: 13.3 Consensus size: 7
2058887 TCTCCTTTTC
2058897 TTTTC-T
1 TTTTCTT
2058903 TTTTCTT
1 TTTTCTT
*
2058910 TTTTCAT
1 TTTTCTT
**
2058917 TTTGATT
1 TTTTCTT
*
2058924 TTAAT-TT
1 TT-TTCTT
*
2058931 TTTTCTC
1 TTTTCTT
2058938 TTTTCTTT
1 TTTTC-TT
2058946 TTTTCTAT
1 TTTTCT-T
2058954 TTTTCTT
1 TTTTCTT
2058961 TCTTT-TT
1 T-TTTCTT
*
2058968 TTGT-TT
1 TTTTCTT
2058974 TTTTCTT
1 TTTTCTT
2058981 TTTTCTT
1 TTTTCTT
2058988 TT
1 TT
2058990 CATTTTTTTG
Statistics
Matches: 69, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
6 13 0.19
7 40 0.58
8 16 0.23
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:2059011 original size:36 final size:36
Alignment explanation
Indices: 2058891--2059012 Score: 88
Period size: 42 Copynumber: 3.2 Consensus size: 36
2058881 TTGGCCTCTC
*
2058891 CTTTTCTTTTC-TTTTTCTTTT--TTCATTTTGATTTT
1 CTTTT-TTTTCTTTTTTCTTTTCATT-TTTTTGATTTT
* * **
2058926 AATTTTTTTCTCTTTTCTTTTTTTCTATTTTTCTTTCTTTTT
1 -CTTTTTTT-TCTTTT-TTCTTTTC-A-TTTT-TTTGATTTT
*
2058968 TTGTTTTTTTCTTTTTTCTTTTCATTTTTTTGATTTT
1 CT-TTTTTTTCTTTTTTCTTTTCATTTTTTTGATTTT
2059005 CTTTTTTT
1 CTTTTTTT
2059013 ATTGATGATT
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
35 3 0.04
36 12 0.18
37 11 0.16
38 10 0.15
39 1 0.01
40 7 0.10
41 8 0.12
42 15 0.22
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (36 bp):
CTTTTTTTTCTTTTTTCTTTTCATTTTTTTGATTTT
Found at i:2059012 original size:28 final size:26
Alignment explanation
Indices: 2058902--2059012 Score: 88
Period size: 28 Copynumber: 4.2 Consensus size: 26
2058892 TTTTCTTTTC
*
2058902 TTTTTCTTT-TTTCATTTTGATTTTAATT
1 TTTTTCTTTCTTT--TTTTGATTTT-CTT
*
2058930 TTTTTC--TCTTTTCTTT--TTTTCTA
1 TTTTTCTTTCTTTT-TTTGATTTTCTT
* *
2058953 TTTTTCTTTCTTTTTTTGTTTTTTTCT
1 TTTTTCTTTCTTTTTTTGATTTTCT-T
2058980 TTTTTCTTTTCATTTTTTTGATTTTCTT
1 TTTTTC-TTTC-TTTTTTTGATTTTCTT
2059008 TTTTT
1 TTTTT
2059013 ATTGATGATT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
23 7 0.10
24 7 0.10
25 7 0.10
26 9 0.13
27 9 0.13
28 16 0.24
29 13 0.19
ACGTcount: A:0.06, C:0.11, G:0.03, T:0.80
Consensus pattern (26 bp):
TTTTTCTTTCTTTTTTTGATTTTCTT
Found at i:2063582 original size:47 final size:45
Alignment explanation
Indices: 2063482--2063584 Score: 109
Period size: 47 Copynumber: 2.2 Consensus size: 45
2063472 TGATAAATTT
* * * * * *
2063482 AAATAATATTAATGGTAATTTAAAATAATAGTATATTATATATTA
1 AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
*
2063527 AAACAATACTAATGAGAAATTTAAAACAAT-GTTAAGATTAAATACTA
1 AAATAATACTAATG-GAAATTTAAAACAATAG-T-AGATTAAATACTA
2063574 AAATAATACTA
1 AAATAATACTA
2063585 TATTTAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
45 13 0.28
46 14 0.30
47 20 0.43
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (45 bp):
AAATAATACTAATGGAAATTTAAAACAATAGTAGATTAAATACTA
Found at i:2066180 original size:39 final size:38
Alignment explanation
Indices: 2066131--2066210 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
2066121 TTAATTAAAG
* *
2066131 TAATGAATTTT-ATTTAAATTTAAATAAAAGTTGCATACT
1 TAATGAATTTTCA-ATAAAATT-AATAAAAGTTGCATACT
* * *
2066170 TAATTAATTTTCAATAAAATTAATACAAGTTGCATATT
1 TAATGAATTTTCAATAAAATTAATAAAAGTTGCATACT
2066208 TAA
1 TAA
2066211 ATTTTAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
38 18 0.51
39 16 0.46
40 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (38 bp):
TAATGAATTTTCAATAAAATTAATAAAAGTTGCATACT
Found at i:2066856 original size:19 final size:20
Alignment explanation
Indices: 2066834--2066871 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2066824 TTACACTTTT
2066834 TTAATAATTTT-AATGATTA
1 TTAATAATTTTAAATGATTA
**
2066853 TTAATTTTTTTAAATGATT
1 TTAATAATTTTAAATGATT
2066872 TTTTGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTAATAATTTTAAATGATTA
Found at i:2067575 original size:14 final size:13
Alignment explanation
Indices: 2067545--2067588 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2067535 AGATTAGGTG
*
2067545 AAAAA-ATTATGT
1 AAAAATATTATAT
*
2067557 AAAAATATATTTAT
1 AAAAATAT-TATAT
2067571 AAAAATATTATAT
1 AAAAATATTATAT
2067584 AAAAA
1 AAAAA
2067589 AAATGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 11 0.41
14 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AAAAATATTATAT
Found at i:2072181 original size:27 final size:27
Alignment explanation
Indices: 2072140--2072203 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
2072130 ACACCATAAT
2072140 AGCTA-TTCTTTAGAGTT-TGCCACAAA
1 AGCTATTTCTTTAGAGTTCT-CCACAAA
*
2072166 AGCTATTTTTTTAGAGTTCTCCACAAA
1 AGCTATTTCTTTAGAGTTCTCCACAAA
*
2072193 GGCTATTTCTT
1 AGCTATTTCTT
2072204 AGTTGTCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (27 bp):
AGCTATTTCTTTAGAGTTCTCCACAAA
Found at i:2073896 original size:664 final size:664
Alignment explanation
Indices: 2072613--2073948 Score: 1832
Period size: 664 Copynumber: 2.0 Consensus size: 664
2072603 CATACTAAAC
*
2072613 ATAAATACTATCATCAAAAAACATTCATACACTCATAGATTTTCCTTAGAAATCATTCATGTAGT
1 ATAAATACTATCATCAAAAAACATTCATACACTCATAAATTTTCCTTAGAAATCATTCATGTAGT
* * *
2072678 CACATACATATTATTTTCATACTATACTTTTCATGGTTTCGAATTCATAGTTTGATCAATTTTCT
66 CACATACATATCATTTTCATACTATACTTTTCATGGTTTCGAATTCATAGTTTAATCAATTTTCC
* *
2072743 TATAAATGTGCTTCGGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTGATTCTC
131 TACAAATGTGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTGATTCTC
** * * * * *
2072808 ACCTACTGTAGTTTAAAGCTCTAGATCCAAATATCCATAACAAGCCAATAACAACCACAACTTAG
196 ACCTACTACAATTCAAAACTCCAGATCCAAATATCCATAACAAGCCAATAACAACAACAACTTAG
* * * *
2072873 AAACATAATTTCAGCATTAATACTCTTGTACATACAGATTACTTATCATTTCAATCCTTGACAAT
261 AAACATAATTTCACCATTAATAATCTTGTACATACAAATTACTTATCATTTCAATCATTGACAAT
* * * * ** * * *
2072938 TCCATGTAGAAACCTTAAACTTACAGTCTTGCTGTCCAATTACGAAATATAGATTTGTTCATTCA
326 TCCATGCAAAAACCCTAAACTTACAATCTCACTGTCAAATTACCAAATACAGATTTGTTCATTCA
* * ** *
2073003 GTACTTAATATGCAGAGCTGAAATACTTATTCTGATGCAAAGTAACTACTGATCATAAAAGAACC
391 GTACTTAACATGCAGAGCTAAAATACTTAGCCTGATGCAAAGTAACTACTAATCATAAAAGAACC
* * * *
2073068 ATTGCCTCTAGCTCACTGATGTAGAATACATTCCGGCTTAAGGAAGATTTCAGTAAATACCACTT
456 ATGGCCTCTAGATCACTGATGTAGAATACATTCAGACTTAAGGAAGATTTCAGTAAATACCACTT
* * *
2073133 AAGGAAGAGGAAAAAGAAAGAAGAACCCCCTTAGAACTCATCTCTCACACATATATAACTTTACT
521 AAGGAAGAGGAAAAAGAAAGAAGAACCCCATCAGAACTCATCTCTCACACATATATAACTTAACT
* * *
2073198 TACATAGTGTAATTTAACAAGTGTTAAGTGTTTCATAAC-TTGCCTTCTTAATGGCCTAC-AGTT
586 TACATAGTATAATTTAACAAGTGTCAAGTGTTTCA-AACTTTGCCTTCTTAATGGCCCACGAGTT
2073261 TTCAAGAGAATTATTA
650 TTCAA-AGAATTATTA
* * ** *
2073277 ATAAATACTATCTTCAACAAACATTCATATGCTCATAAATTTTCTTTAGAAATCATTCATGTAGT
1 ATAAATACTATCATCAAAAAACATTCATACACTCATAAATTTTCCTTAGAAATCATTCATGTAGT
2073342 CACATACATATCATTTTCATACTATACTTTTCATGGTTTCTG-ATTCATAGTTTAATCAATTTTC
66 CACATACATATCATTTTCATACTATACTTTTCATGGTTTC-GAATTCATAGTTTAATCAATTTTC
* *
2073406 CTACAGATGTGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAATTCACCTGATTCT
130 CTACAAATGTGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTGATTCT
* ** * * * **
2073471 CACCTACTACAATTCAAAACTCCAGATCCAGATAT-CATCATGAA-TCAGTAGCAACAACTGCTT
195 CACCTACTACAATTCAAAACTCCAGATCCAAATATCCAT-AACAAGCCAATAACAACAACAACTT
2073534 AGAAACATAATTTCACCATTAATAAT-TTGTACATACAAATTACTTATCATTTCAATCATTGACA
259 AGAAACATAATTTCACCATTAATAATCTTGTACATACAAATTACTTATCATTTCAATCATTGACA
* * *
2073598 A-TCC-T-CAAAAACCCTATACTTACAATCTCACTGTCAAATTACCTAATACATATTTGCTT-AT
324 ATTCCATGCAAAAACCCTAAACTTACAATCTCACTGTCAAATTACCAAATACAGATTTG-TTCAT
* * *
2073659 TCAGTATTTAACATGCAGAGGC-AAAATACTTAGCCTGGTGTAAAGTAACTACTAATCATAAAAG
388 TCAGTACTTAACATGCAGA-GCTAAAATACTTAGCCTGATGCAAAGTAACTACTAATCATAAAAG
* * *
2073723 AACCATGGCCTCTAGATCA-TCGATGTAGGATACATTTAGACTTAAGGAAGATTTTAGTAAATAC
452 AACCATGGCCTCTAGATCACT-GATGTAGAATACATTCAGACTTAAGGAAGATTTCAGTAAATAC
* * **
2073787 CACTTAAGGAAGAGGAAGAAGAAAGAAGAACCCCATCAGAACTCATTTCTCACATGTATATAACT
516 CACTTAAGGAAGAGGAAAAAGAAAGAAGAACCCCATCAGAACTCATCTCTCACACATATATAACT
*
2073852 TAACTTACATAGTATAATTTAACACTACACGTGTCAAGTGTTTCAAACTTTGCCTTCTTAATTGC
581 TAACTTACATAGTATAATTT-A-AC-A-A-GTGTCAAGTGTTTCAAACTTTGCCTTCTTAATGGC
* *
2073917 CCACGATTTTTGAAAGAATTATTA
641 CCACGAGTTTTCAAAGAATTATTA
2073941 ATAAATAC
1 ATAAATAC
2073949 GTTGAAATTA
Statistics
Matches: 588, Mismatches: 72, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
658 1 0.00
659 226 0.38
660 6 0.01
661 5 0.01
662 38 0.06
663 44 0.07
664 260 0.44
665 8 0.01
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (664 bp):
ATAAATACTATCATCAAAAAACATTCATACACTCATAAATTTTCCTTAGAAATCATTCATGTAGT
CACATACATATCATTTTCATACTATACTTTTCATGGTTTCGAATTCATAGTTTAATCAATTTTCC
TACAAATGTGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTGATTCTC
ACCTACTACAATTCAAAACTCCAGATCCAAATATCCATAACAAGCCAATAACAACAACAACTTAG
AAACATAATTTCACCATTAATAATCTTGTACATACAAATTACTTATCATTTCAATCATTGACAAT
TCCATGCAAAAACCCTAAACTTACAATCTCACTGTCAAATTACCAAATACAGATTTGTTCATTCA
GTACTTAACATGCAGAGCTAAAATACTTAGCCTGATGCAAAGTAACTACTAATCATAAAAGAACC
ATGGCCTCTAGATCACTGATGTAGAATACATTCAGACTTAAGGAAGATTTCAGTAAATACCACTT
AAGGAAGAGGAAAAAGAAAGAAGAACCCCATCAGAACTCATCTCTCACACATATATAACTTAACT
TACATAGTATAATTTAACAAGTGTCAAGTGTTTCAAACTTTGCCTTCTTAATGGCCCACGAGTTT
TCAAAGAATTATTA
Found at i:2077979 original size:52 final size:51
Alignment explanation
Indices: 2077872--2078008 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 51
2077862 TCTTGAATTT
* **
2077872 TAAAACCTCTTTTAAAT--AATAATTTAAATTCTATTTAATTATCTTTTTATT
1 TAAAA-CTCTTTTAAATAAAATAA-TTAAATTCTATTTAATTATCTATTTACC
2077923 TAAAACTCTTTTAAATAACAATAATTAAATTCTATTCTAATTA-CTATTTACC
1 TAAAACTCTTTTAAATAA-AATAATTAAATTCTATT-TAATTATCTATTTACC
2077975 TAAAACTCTTTTAAAT--AATAATTAAATTCTATTT
1 TAAAACTCTTTTAAATAAAATAATTAAATTCTATTT
2078009 CCTTATCTGA
Statistics
Matches: 79, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
48 1 0.01
49 17 0.22
50 11 0.14
51 5 0.06
52 34 0.43
53 11 0.14
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (51 bp):
TAAAACTCTTTTAAATAAAATAATTAAATTCTATTTAATTATCTATTTACC
Found at i:2084198 original size:8 final size:8
Alignment explanation
Indices: 2084185--2084332 Score: 296
Period size: 8 Copynumber: 18.5 Consensus size: 8
2084175 GCTACTTTTA
2084185 TTTTCAAT
1 TTTTCAAT
2084193 TTTTCAAT
1 TTTTCAAT
2084201 TTTTCAAT
1 TTTTCAAT
2084209 TTTTCAAT
1 TTTTCAAT
2084217 TTTTCAAT
1 TTTTCAAT
2084225 TTTTCAAT
1 TTTTCAAT
2084233 TTTTCAAT
1 TTTTCAAT
2084241 TTTTCAAT
1 TTTTCAAT
2084249 TTTTCAAT
1 TTTTCAAT
2084257 TTTTCAAT
1 TTTTCAAT
2084265 TTTTCAAT
1 TTTTCAAT
2084273 TTTTCAAT
1 TTTTCAAT
2084281 TTTTCAAT
1 TTTTCAAT
2084289 TTTTCAAT
1 TTTTCAAT
2084297 TTTTCAAT
1 TTTTCAAT
2084305 TTTTCAAT
1 TTTTCAAT
2084313 TTTTCAAT
1 TTTTCAAT
2084321 TTTTCAAT
1 TTTTCAAT
2084329 TTTT
1 TTTT
2084333 TCTTCAAAAT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 140 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTCAAT
Found at i:2085956 original size:9 final size:9
Alignment explanation
Indices: 2085936--2086002 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
2085926 GCAGTGATTC
2085936 AATTCGGTT
1 AATTCGGTT
2085945 AATTCAGG-T
1 AATTC-GGTT
2085954 AATTCGGTT
1 AATTCGGTT
*
2085963 AATTCGGAT
1 AATTCGGTT
2085972 AATTCGGTT
1 AATTCGGTT
*
2085981 AATTCAGTT
1 AATTCGGTT
*
2085990 AATTCGGTG
1 AATTCGGTT
2085999 AATT
1 AATT
2086003 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
8 2 0.04
9 47 0.92
10 2 0.04
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:2087716 original size:41 final size:41
Alignment explanation
Indices: 2087630--2087732 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
2087620 TACGAAAATG
* * **
2087630 CTTCTAGCTAGAAGCATTTTCAGCTGATTTGCAGAAAAGTG
1 CTTCTAGCTAGAAGCATTTTTAGCTGATTTACAGAAAAGCA
2087671 CTTCTAGCTAGAAGCATTTTTAGCAT-ATTTACAGGAAAA-CA
1 CTTCTAGCTAGAAGCATTTTTAGC-TGATTTACA-GAAAAGCA
* *
2087712 CTTCTAGCTGGAAGCACTTTT
1 CTTCTAGCTAGAAGCATTTTT
2087733 GCCACATAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
41 48 0.89
42 6 0.11
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (41 bp):
CTTCTAGCTAGAAGCATTTTTAGCTGATTTACAGAAAAGCA
Found at i:2087930 original size:19 final size:19
Alignment explanation
Indices: 2087906--2087943 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2087896 TTTTTCAATT
*
2087906 CAATCTCAACTCTCTCTCA
1 CAATCTCAAATCTCTCTCA
2087925 CAATCTCAAATCTCTCTCA
1 CAATCTCAAATCTCTCTCA
2087944 AATTTCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (19 bp):
CAATCTCAAATCTCTCTCA
Found at i:2087963 original size:22 final size:21
Alignment explanation
Indices: 2087928--2087972 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
2087918 TCTCTCACAA
*
2087928 TCTCAAATCTCTCTCAAATTTC
1 TCTCAAATCCCTCT-AAATTTC
* *
2087950 TCTCAATTCCCTCTTAATTTC
1 TCTCAAATCCCTCTAAATTTC
2087971 TC
1 TC
2087973 ACTCAAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TCTCAAATCCCTCTAAATTTC
Found at i:2098702 original size:13 final size:13
Alignment explanation
Indices: 2098684--2098726 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2098674 TTATAAAGTG
2098684 AAAAAATTTATTT
1 AAAAAATTTATTT
*
2098697 AAAAAATTTA-TA
1 AAAAAATTTATTT
* *
2098709 AAAAAATTGATAT
1 AAAAAATTTATTT
2098722 AAAAA
1 AAAAA
2098727 TAAAATGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAAAATTTATTT
Found at i:2098712 original size:12 final size:12
Alignment explanation
Indices: 2098684--2098727 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2098674 TTATAAAGTG
*
2098684 AAAAAATTTATTT
1 AAAAAATTTA-TA
2098697 AAAAAATTTATA
1 AAAAAATTTATA
*
2098709 AAAAAATTGATA
1 AAAAAATTTATA
*
2098721 TAAAAAT
1 AAAAAAT
2098728 AAAATGCAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAAAATTTATA
Found at i:2109016 original size:13 final size:13
Alignment explanation
Indices: 2108998--2109040 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2108988 TTATAAAGTG
2108998 AAAAAATTTATTT
1 AAAAAATTTATTT
*
2109011 AAAAAATTTA-TA
1 AAAAAATTTATTT
* *
2109023 AAAAAATTGATAT
1 AAAAAATTTATTT
2109036 AAAAA
1 AAAAA
2109041 TAAAATGCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAAAATTTATTT
Found at i:2109026 original size:12 final size:12
Alignment explanation
Indices: 2108998--2109041 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2108988 TTATAAAGTG
*
2108998 AAAAAATTTATTT
1 AAAAAATTTA-TA
2109011 AAAAAATTTATA
1 AAAAAATTTATA
*
2109023 AAAAAATTGATA
1 AAAAAATTTATA
*
2109035 TAAAAAT
1 AAAAAAT
2109042 AAAATGCAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAAAAATTTATA
Found at i:2110875 original size:4 final size:4
Alignment explanation
Indices: 2110868--2110893 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2110858 TATAATTGTT
2110868 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
2110894 ATTACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:2112643 original size:20 final size:20
Alignment explanation
Indices: 2112620--2112684 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 20
2112610 AAAATATTTC
* *
2112620 AAAAAAATGAAAATGATGAA-
1 AAAAAAAAGAAAAAGA-GAAG
2112640 AAAAGAAAAGAAAAAGAGAAG
1 AAAA-AAAAGAAAAAGAGAAG
*
2112661 AAAAAAAAG-AAAAGAAAAG
1 AAAAAAAAGAAAAAGAGAAG
2112680 AAAAA
1 AAAAA
2112685 GGAGAGACCA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 14 0.35
20 12 0.30
21 14 0.35
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAAAAAAGAAAAAGAGAAG
Found at i:2112650 original size:5 final size:5
Alignment explanation
Indices: 2112640--2112683 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
2112630 AAATGATGAA
*
2112640 AAAAG AAAAG AAAAAG AGAAG AAAA- AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
2112684 AGGAGAGACC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 26 0.74
6 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2114118 original size:21 final size:21
Alignment explanation
Indices: 2114092--2114135 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2114082 CTGGCGTTGC
*
2114092 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
2114113 AGTGGAGCGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
2114134 AG
1 AG
2114136 GTAGCGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.34, T:0.20
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:2114159 original size:72 final size:72
Alignment explanation
Indices: 2114041--2114182 Score: 194
Period size: 72 Copynumber: 2.0 Consensus size: 72
2114031 CTGGCTTTGT
* * * * * *
2114041 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTA
1 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCCTGGCGTTACAGTGCAACAGATTA
2114106 AAGCTGA
66 AAGCTGA
* * * *
2114113 AGTGGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCCTTGGCGTTACAGTGCAACAGATTA
1 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCCTGGCGTTACAGTGCAACAGATTA
2114178 AAGCT
66 AAGCT
2114183 AAAGGTAGCG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (72 bp):
AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCCTGGCGTTACAGTGCAACAGATTA
AAGCTGA
Found at i:2114226 original size:51 final size:51
Alignment explanation
Indices: 2114116--2114264 Score: 156
Period size: 51 Copynumber: 2.9 Consensus size: 51
2114106 AAGCTGAAGT
* * * *
2114116 GGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCCTTGGCGTTACAGT
1 GGAGCAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTACAGC
* * * * * *
2114167 GCAACAGATTAAAGCTAAAGGTAGCGAATCTTGT-TTCTCTGGCATTGCAGC
1 GGAGCAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCT-TGGCATTACAGC
** * *
2114218 GGAGCAGATTAAAGCTAAAGGTAGCGAATTTTATCTCCCTGGAATTA
1 GGAGCAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTA
2114265 AAGCTGAAGA
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
50 3 0.04
51 73 0.94
52 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTACAGC
Found at i:2114279 original size:36 final size:36
Alignment explanation
Indices: 2114225--2114295 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
2114215 AGCGGAGCAG
* *
2114225 ATTAAAGCTAAAGGTAGCGAATTTTATCTCCCTGGA
1 ATTAAAGCTAAAGATAGCGAATCTTATCTCCCTGGA
* *
2114261 ATTAAAGCTGAAGATAGCGAATCTTATTTCCCTGG
1 ATTAAAGCTAAAGATAGCGAATCTTATCTCCCTGG
2114296 CTTTGCAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (36 bp):
ATTAAAGCTAAAGATAGCGAATCTTATCTCCCTGGA
Found at i:2114324 original size:87 final size:87
Alignment explanation
Indices: 2114174--2114333 Score: 248
Period size: 87 Copynumber: 1.8 Consensus size: 87
2114164 AGTGCAACAG
* * * *
2114174 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCTCTGGCATTGCAGCGGAGCAGATTAAAGCTAAAGG
1 ATTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGCGGAACAGATTAAAGCTAAAGG
2114239 TAGCGAATTTTATCTCCCTGGA
66 TAGCGAATTTTATCTCCCTGGA
* * * *
2114261 ATTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGTTAAAGG
1 ATTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGCGGAACAGATTAAAGCTAAAGG
2114326 TAGCGAAT
66 TAGCGAAT
2114334 CTTGTTTCCC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (87 bp):
ATTAAAGCTAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGCGGAACAGATTAAAGCTAAAGG
TAGCGAATTTTATCTCCCTGGA
Found at i:2114330 original size:51 final size:51
Alignment explanation
Indices: 2114261--2114371 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
2114251 TCTCCCTGGA
* * * *
2114261 ATTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAG
1 ATTAAAGTTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
* * *
2114312 ATTAAAGTTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATAG
1 ATTAAAGTTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
2114363 ATTAAAGTT
1 ATTAAAGTT
2114372 GAAGTGGAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (51 bp):
ATTAAAGTTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAG
Found at i:2114404 original size:20 final size:21
Alignment explanation
Indices: 2114362--2114405 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2114352 CAGTGGAATA
* *
2114362 GATTAAAGTTGAAGTGGAGCG
1 GATTAAAGCTGAAGTGCAGCG
2114383 GATTAAAGCTGAAG-GCAGCG
1 GATTAAAGCTGAAGTGCAGCG
2114403 GAT
1 GAT
2114406 CCTATCTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.34, C:0.09, G:0.36, T:0.20
Consensus pattern (21 bp):
GATTAAAGCTGAAGTGCAGCG
Found at i:2114475 original size:261 final size:261
Alignment explanation
Indices: 2114005--2114873 Score: 1308
Period size: 261 Copynumber: 3.3 Consensus size: 261
2113995 GCAGTGGAGC
* * * *
2114005 AGCTGAAGACAACGAATTTTATTTCTCTGGCTTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCG
1 AGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCG
*
2114070 AATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAA
66 AATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAA
* *
2114135 GGTAGCGAATCCTATCTCCTTGGCGTTACAGTGCAACAGATTAAAGCTAAAGGTAGCGAATCTTG
131 GGCAGCGAATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTG
* * * * *
2114200 TTT-CTCTGGCATTGCAGCGGAGCAGATTAAAGCTAAAGGTAGCGAATTTTATCTCCCTGGAATT
196 TTTCCT-TAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCATT
2114264 AA
260 AA
* *
2114266 AGCTGAAGATAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGTTAAAGGTAGCG
1 AGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCG
*
2114331 AATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGTTGAAGTGGAGCGGATTAAAGCTGAA
66 AATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAA
* * * * *
2114396 GGCAGCGGATCCTATCTCATTGGCGTTACAGTGGAATAGGTTAAAGCTAAAGGTGGCGAATCTTG
131 GGCAGCGAATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTG
* *
2114461 TTTCCTTAGCATTGCAGCGTAGCAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCCTGGCATTA
196 TTTCCTTAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCATTA
2114526 A
261 A
* * * * * *
2114527 AGCTGAAGATAGAGAATCTTGTTTCTCTGGCTTTGCAGTGAAACAGATTAAAACTAAAGGTAGCG
1 AGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCG
* * * * *
2114592 AATTTTGTTTCCCTAGCTTTGCAGTAGAATATATTAAAGCTGAAGTGGAGTGGATTAAAGCTGAA
66 AATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAA
* * *
2114657 GGCAGCGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAAAGCTAAAGGTTGCAAATCTTG
131 GGCAGCGAATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTG
* * * * *
2114722 TTTCCCTAGCATTGCAGTGGAGCAGATTAAAGTTGAAGGCAGCGAATCTTATCTTCCTGGCGTTA
196 TTTCCTTAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCATTA
2114787 A
261 A
* * * *
2114788 AGCTGAAGACAGTGAATCTTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCG
1 AGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCG
*
2114853 AATCTTGTTTCCCTGGCGTTG
66 AATCTTGTTTCCCTAGCGTTG
2114874 TAGCGGAGCA
Statistics
Matches: 547, Mismatches: 60, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
261 545 1.00
262 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (261 bp):
AGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCG
AATCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAA
GGCAGCGAATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTG
TTTCCTTAGCATTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCATTA
A
Found at i:2114632 original size:138 final size:135
Alignment explanation
Indices: 2114384--2114866 Score: 458
Period size: 138 Copynumber: 3.6 Consensus size: 135
2114374 AGTGGAGCGG
* * * * * * * *
2114384 ATTAAAGCTGAAGGCAGCGGATCCTATCTCATTGGCGTTACAGTGGAATAGGTTAAAGCTAAAGG
1 ATTAAAGCTGAAGACAGAGAATCTTATCTC-CTGGCTTTACAGTGGAACAGATTAAAGCTAAAGG
* *
2114449 TGGCGAATCTTGTTTCCTTAGCATTGCAGCGTAG-CAGATTAAAGCTGAAGGCAGTGAATCTTAT
65 TAGCGAATCTTGTTTCCCTAGCATTGCA--GTAGACAGATTAAAGCTGAAGGCAGTGAATCTTAT
2114513 CTCCCTGGC
128 CT-CCTGGC
* * * * * *
2114522 ATTAAAGCTGAAGATAGAGAATCTTGTTTCTCTGGCTTTGCAGTGAAACAGATTAAAACTAAAGG
1 ATTAAAGCTGAAGACAGAGAATCTTATCTC-CTGGCTTTACAGTGGAACAGATTAAAGCTAAAGG
* * * * *
2114587 TAGCGAATTTTGTTTCCCTAGCTTTGCAGTAGAATATATTAAAGCTG-A---AGTG-----GA--
65 TAGCGAATCTTGTTTCCCTAGCATTGCAGTAG-ACAGATTAAAGCTGAAGGCAGTGAATCTTATC
*
2114641 --GTGG-
129 TCCTGGC
* * *
2114645 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGG-TGTTACAGTGGAACAGATTAAAGCTAAAG
1 ATTAAAGCTGAAGACAGAGAATCTTATCTCC-TGGCT-TTACAGTGGAACAGATTAAAGCTAAAG
* * * * *
2114709 GTTGCAAATCTTGTTTCCCTAGCATTGCAGTGGAGCAGATTAAAGTTGAAGGCAGCGAATCTTAT
64 GTAGCGAATCTTGTTTCCCTAGCATTGCAGTAGA-CAGATTAAAGCTGAAGGCAGTGAATCTTAT
2114774 CTTCCTGGC
128 C-TCCTGGC
* * *
2114783 GTTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGG
1 ATTAAAGCTGAAGACAGAGAATCTTATCT-CCTGGCTTTACAGTGGAACAGATTAAAGCTAAAGG
2114848 TAGCGAATCTTGTTTCCCT
65 TAGCGAATCTTGTTTCCCT
2114867 GGCGTTGTAG
Statistics
Matches: 273, Mismatches: 50, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
122 3 0.01
123 89 0.33
124 4 0.01
127 3 0.01
129 1 0.00
132 1 0.00
134 4 0.01
136 4 0.01
137 4 0.01
138 158 0.58
139 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (135 bp):
ATTAAAGCTGAAGACAGAGAATCTTATCTCCTGGCTTTACAGTGGAACAGATTAAAGCTAAAGGT
AGCGAATCTTGTTTCCCTAGCATTGCAGTAGACAGATTAAAGCTGAAGGCAGTGAATCTTATCTC
CTGGC
Found at i:2114770 original size:51 final size:51
Alignment explanation
Indices: 2114635--2114775 Score: 138
Period size: 51 Copynumber: 2.8 Consensus size: 51
2114625 TTAAAGCTGA
** * * * **
2114635 AGTGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGTGTTAC
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGCATTAC
* * ** * * * *
2114686 AGTGGAACAGATTAAAGCTAAAGGTTGCAAATCTTGTTTCCCTAGCATTGC
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGCATTAC
*
2114737 AGTGGAGCAGATTAAAGTTGAAGGCAGCGAATCTTATCT
1 AGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCT
2114776 TCCTGGCGTT
Statistics
Matches: 67, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (51 bp):
AGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAGCATTAC
Found at i:2114795 original size:36 final size:36
Alignment explanation
Indices: 2114748--2114822 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
2114738 GTGGAGCAGA
* * *
2114748 TTAAAGTTGAAGGCAGCGAATCTTATCTTCCTGGCG
1 TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
*
2114784 TTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCG
1 TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
2114820 TTA
1 TTA
2114823 CAGTGGAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (36 bp):
TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
Found at i:2114897 original size:138 final size:138
Alignment explanation
Indices: 2114646--2114897 Score: 371
Period size: 138 Copynumber: 1.8 Consensus size: 138
2114636 GTGGAGTGGA
* * *
2114646 TTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAAAGCTAAAGGT
1 TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
* * * *
2114711 TGCAAATCTTGTTTCCCTAGCATTGCAGTGGAGCAGATTAAAGTTGAAGGCAGCGAATCTTATCT
66 AGCAAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATCAAAGCTGAAGGCAGCGAATCTTATCT
2114776 TCCTGGCG
131 TCCTGGCG
* *
2114784 TTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
1 TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
* * * *
2114849 AGCGAATCTTGTTTCCCTGGCGTTGTAGCGGAGCAGATC-AAGACTGAAG
66 AGCAAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATCAAAG-CTGAAG
2114898 ATAACAAACC
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 3 0.03
138 97 0.97
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (138 bp):
TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
AGCAAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATCAAAGCTGAAGGCAGCGAATCTTATCT
TCCTGGCG
Found at i:2114970 original size:44 final size:44
Alignment explanation
Indices: 2114907--2115026 Score: 154
Period size: 44 Copynumber: 2.7 Consensus size: 44
2114897 GATAACAAAC
**
2114907 CTTATCTCCCTGAAGTTGCAGTGGA-CTAGGTTGAA-CATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AAATTGAAGC-TACCAAT
**
2114951 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACCAAT
* *
2114995 CATATCTCCCTGAAGTAGCAGTGGAGCAAATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATT
2115027 AAAACGATGA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 66 0.97
45 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACCAAT
Found at i:2115054 original size:44 final size:44
Alignment explanation
Indices: 2114948--2115039 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
2114938 TGAACATACC
* * * * * *
2114948 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATT
1 AATCATATCTCCCTGAAGTAGCAGTGGAGCAAATTAAAACGATG
2114992 AATCATATCTCCCTGAAGTAGCAGTGGAGCAAATTAAAACGATG
1 AATCATATCTCCCTGAAGTAGCAGTGGAGCAAATTAAAACGATG
2115036 AATC
1 AATC
2115040 TTATACCTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCATATCTCCCTGAAGTAGCAGTGGAGCAAATTAAAACGATG
Found at i:2115934 original size:17 final size:19
Alignment explanation
Indices: 2115912--2115954 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
2115902 ACACTTTAAG
2115912 TTTTTTTTTC-ATTT--TA
1 TTTTTTTTTCTATTTCATA
2115928 TTTTTTTATTCTATTTCATA
1 TTTTTTT-TTCTATTTCATA
2115948 TTTTTTT
1 TTTTTTT
2115955 CTTTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 3 0.13
18 4 0.17
20 9 0.39
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTTTCTATTTCATA
Found at i:2115956 original size:17 final size:17
Alignment explanation
Indices: 2115914--2115956 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2115904 ACTTTAAGTT
* *
2115914 TTTTTTTC-ATTTTATT
1 TTTTTTTCTATTTCATA
2115930 TTTTTATTCTATTTCATA
1 TTTTT-TTCTATTTCATA
2115948 TTTTTTTCT
1 TTTTTTTCT
2115957 TTTTTTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 5 0.22
17 7 0.30
18 11 0.48
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTCTATTTCATA
Found at i:2115975 original size:25 final size:25
Alignment explanation
Indices: 2115922--2115975 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
2115912 TTTTTTTTTC
*
2115922 ATTTTATTTTTTTATTCTATTTCAT
1 ATTTTATTTTTTTATTCTATTTCAA
*
2115947 ATTTT-TTTCTTTTTTTC-ATTTCGAA
1 ATTTTATTT-TTTTATTCTATTTC-AA
2115972 ATTT
1 ATTT
2115976 ATAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (25 bp):
ATTTTATTTTTTTATTCTATTTCAA
Found at i:2116764 original size:13 final size:13
Alignment explanation
Indices: 2116748--2116772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2116738 ATTAAATACA
2116748 TTTATTTTATTTG
1 TTTATTTTATTTG
2116761 TTTATTTTATTT
1 TTTATTTTATTT
2116773 TATATAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTG
Found at i:2116841 original size:24 final size:24
Alignment explanation
Indices: 2116800--2116857 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2116790 TTATGATTTC
*
2116800 TACTATTATTATTATTATCATTAT
1 TACTTTTATTATTATTATCATTAT
* *
2116824 TACTTTTATTA-TATTTATCTTTTT
1 TACTTTTATTATTA-TTATCATTAT
*
2116848 TAGTTTTATT
1 TACTTTTATT
2116858 TAATATTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (24 bp):
TACTTTTATTATTATTATCATTAT
Found at i:2130278 original size:50 final size:50
Alignment explanation
Indices: 2130201--2130427 Score: 247
Period size: 50 Copynumber: 4.4 Consensus size: 50
2130191 TGTCATATCT
* ** * * *
2130201 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
** *
2130251 CAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
**
2130301 CAGACATGGTCTTACATGGGACCTCTCATCCCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
* * * * *
2130351 CAGACATGGTCTTACCTAGGACCTCTCATAATCTCAATGATGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCC
*
2130407 CAAACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
2130428 TCTCATTCCC
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
50 115 0.77
53 1 0.01
56 33 0.22
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
Found at i:2134393 original size:24 final size:24
Alignment explanation
Indices: 2134361--2134410 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
2134351 AGCACACTTG
2134361 TAGAGTCTAAAAAATTCACGTTCA
1 TAGAGTCTAAAAAATTCACGTTCA
2134385 TAGAGTCTAAAAAATTCACGTTCA
1 TAGAGTCTAAAAAATTCACGTTCA
2134409 TA
1 TA
2134411 CTCAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (24 bp):
TAGAGTCTAAAAAATTCACGTTCA
Found at i:2136577 original size:50 final size:50
Alignment explanation
Indices: 2136500--2136726 Score: 238
Period size: 50 Copynumber: 4.4 Consensus size: 50
2136490 TGTCATATCT
* ** * * *
2136500 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
* * **
2136550 CAGACATGGTCTTACAGGGGACCTCTCATCTTAGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
* **
2136600 CAGACATGGTCTTACATTGGACCTCTCATCCCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
* * * * *
2136650 CAGGCATGGTCTTACCTAGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCC
2136706 CAGACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
2136727 TCGCATTCCC
Statistics
Matches: 146, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
50 111 0.76
53 1 0.01
56 34 0.23
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCC
Found at i:2136627 original size:100 final size:104
Alignment explanation
Indices: 2136500--2136726 Score: 273
Period size: 100 Copynumber: 2.2 Consensus size: 104
2136490 TGTCATATCT
* ** * * * *
2136500 CAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTCCCAGACATGGTCTTAC
1 CAGACATGGTCTTACATGGGACCTCTCATACCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
* *
2136565 AGGGGACCTCTC-ATCT-TA-G-TGCCAACGCCATGTCC
66 AGAGGACCTCTCAATCTCAATGATGCCAACGCCATGTCC
* * *
2136600 CAGACATGGTCTTACATTGGACCTCTCATCCCGGTGCCAACGCCATGTCCCAGGCATGGTCTTAC
1 CAGACATGGTCTTACATGGGACCTCTCATACCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
** *
2136665 CTAGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
66 AGAGGACCTCTC--AATCTCAATGATGCCAACGCCATGTCC
2136706 CAGACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
2136727 TCGCATTCCC
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
100 64 0.61
103 4 0.04
104 1 0.01
105 1 0.01
106 35 0.33
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (104 bp):
CAGACATGGTCTTACATGGGACCTCTCATACCGGTGCCAACGCCATGTCCCAGACATGGTCTTAC
AGAGGACCTCTCAATCTCAATGATGCCAACGCCATGTCC
Found at i:2137102 original size:30 final size:30
Alignment explanation
Indices: 2137068--2137125 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2137058 CCTTGAATCT
2137068 AACTTTTACAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
2137098 AACTTTTACATAATTACACTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
2137126 AAAGCTCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:2137231 original size:44 final size:44
Alignment explanation
Indices: 2137168--2137345 Score: 356
Period size: 44 Copynumber: 4.0 Consensus size: 44
2137158 TTATGTTTAA
2137168 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
1 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
2137212 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
1 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
2137256 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
1 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
2137300 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
1 TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
2137344 TA
1 TA
2137346 CTCTAAAACT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 134 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (44 bp):
TAACATGATGAACATTGTTTCCTTCTATGACAACATCAAATTCT
Found at i:2139996 original size:222 final size:222
Alignment explanation
Indices: 2139610--2140056 Score: 894
Period size: 222 Copynumber: 2.0 Consensus size: 222
2139600 TTTTTTTCCT
2139610 CATCGTATTTGTGGTCCCGAAACCAATGTTCCGACTAGACCCAAAATCAGGATGTTGCAAAAAAT
1 CATCGTATTTGTGGTCCCGAAACCAATGTTCCGACTAGACCCAAAATCAGGATGTTGCAAAAAAT
2139675 CGCCGCTAAGCTATTTTTATTATGTACAAATACAAAATATATAAATGAATAACTTATTATACATA
66 CGCCGCTAAGCTATTTTTATTATGTACAAATACAAAATATATAAATGAATAACTTATTATACATA
2139740 TTTTTTCTCTTGTGTTACTTTCTTAGTGGTGACTAAATGTCAACTAAGAAAGTTTGCCACAAACT
131 TTTTTTCTCTTGTGTTACTTTCTTAGTGGTGACTAAATGTCAACTAAGAAAGTTTGCCACAAACT
2139805 TTTAATAATTTGGGTTTACTCCACCAG
196 TTTAATAATTTGGGTTTACTCCACCAG
2139832 CATCGTATTTGTGGTCCCGAAACCAATGTTCCGACTAGACCCAAAATCAGGATGTTGCAAAAAAT
1 CATCGTATTTGTGGTCCCGAAACCAATGTTCCGACTAGACCCAAAATCAGGATGTTGCAAAAAAT
2139897 CGCCGCTAAGCTATTTTTATTATGTACAAATACAAAATATATAAATGAATAACTTATTATACATA
66 CGCCGCTAAGCTATTTTTATTATGTACAAATACAAAATATATAAATGAATAACTTATTATACATA
2139962 TTTTTTCTCTTGTGTTACTTTCTTAGTGGTGACTAAATGTCAACTAAGAAAGTTTGCCACAAACT
131 TTTTTTCTCTTGTGTTACTTTCTTAGTGGTGACTAAATGTCAACTAAGAAAGTTTGCCACAAACT
2140027 TTTAATAATTTGGGTTTACTCCACCAG
196 TTTAATAATTTGGGTTTACTCCACCAG
2140054 CAT
1 CAT
2140057 TAATGTTGAA
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 225 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (222 bp):
CATCGTATTTGTGGTCCCGAAACCAATGTTCCGACTAGACCCAAAATCAGGATGTTGCAAAAAAT
CGCCGCTAAGCTATTTTTATTATGTACAAATACAAAATATATAAATGAATAACTTATTATACATA
TTTTTTCTCTTGTGTTACTTTCTTAGTGGTGACTAAATGTCAACTAAGAAAGTTTGCCACAAACT
TTTAATAATTTGGGTTTACTCCACCAG
Found at i:2144461 original size:16 final size:16
Alignment explanation
Indices: 2144440--2144470 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2144430 TTGAGTAAAA
2144440 AAAATTGACCAAAACG
1 AAAATTGACCAAAACG
*
2144456 AAAATTGACCTAAAC
1 AAAATTGACCAAAAC
2144471 TGAGGTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATTGACCAAAACG
Found at i:2154093 original size:14 final size:15
Alignment explanation
Indices: 2154067--2154096 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2154057 AGTTGCACGT
2154067 AAAATTTTAAAATAA
1 AAAATTTTAAAATAA
2154082 AAAATTTT-AAATAA
1 AAAATTTTAAAATAA
2154096 A
1 A
2154097 CATTGAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTTTAAAATAA
Found at i:2154962 original size:14 final size:14
Alignment explanation
Indices: 2154943--2155108 Score: 136
Period size: 14 Copynumber: 11.9 Consensus size: 14
2154933 TCTCACATGC
2154943 GGATTCATAGATGT
1 GGATTCATAGATGT
* **
2154957 GAATTCATAGATAC
1 GGATTCATAGATGT
*
2154971 GGATCCATACG-TGT
1 GGATTCATA-GATGT
*
2154985 GGATTCATAGATGC
1 GGATTCATAGATGT
* * *
2154999 AGATTCATACATGC
1 GGATTCATAGATGT
* * * *
2155013 AGATTTATAAATGC
1 GGATTCATAGATGT
* *
2155027 GAATTCATACATGT
1 GGATTCATAGATGT
*
2155041 GGATTTATAGATGT
1 GGATTCATAGATGT
* *
2155055 GGATTCATATATGC
1 GGATTCATAGATGT
* **
2155069 GAATTCATAGATAC
1 GGATTCATAGATGT
2155083 GGATTCATAGATGT
1 GGATTCATAGATGT
2155097 GGATTCATAGAT
1 GGATTCATAGAT
2155109 ACAGAATGTC
Statistics
Matches: 120, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
13 1 0.01
14 118 0.98
15 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (14 bp):
GGATTCATAGATGT
Found at i:2154985 original size:28 final size:28
Alignment explanation
Indices: 2154942--2155110 Score: 151
Period size: 28 Copynumber: 6.0 Consensus size: 28
2154932 CTCTCACATG
*
2154942 CGGATTCATAGATGTGAATTCATAGATA
1 CGGATTCATACATGTGAATTCATAGATA
* * * *
2154970 CGGATCCATACGTGTGGATTCATAGATG
1 CGGATTCATACATGTGAATTCATAGATA
* * * * *
2154998 CAGATTCATACATG-CAGATTTATAAATG
1 CGGATTCATACATGTGA-ATTCATAGATA
* * * *
2155026 CGAATTCATACATGTGGATTTATAGATG
1 CGGATTCATACATGTGAATTCATAGATA
* * *
2155054 TGGATTCATATATGCGAATTCATAGATA
1 CGGATTCATACATGTGAATTCATAGATA
* *
2155082 CGGATTCATAGATGTGGATTCATAGATA
1 CGGATTCATACATGTGAATTCATAGATA
2155110 C
1 C
2155111 AGAATGTCTC
Statistics
Matches: 111, Mismatches: 28, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
28 111 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (28 bp):
CGGATTCATACATGTGAATTCATAGATA
Found at i:2157794 original size:110 final size:111
Alignment explanation
Indices: 2157654--2157875 Score: 428
Period size: 110 Copynumber: 2.0 Consensus size: 111
2157644 TTTTTTATAT
*
2157654 AATAGTAGTTTAATTTCCTTAATAATTATTTTGGTTTTTTTTACTATAAGATAATATTTTGTATA
1 AATAGTAGTTTAATTTCCTTAATAAATATTTTGGTTTTTTTTACTATAAGATAATATTTTGTATA
2157719 ATGGAAAGTGATCATTGGGGTTTTAATTAGTTTGAATATGATTCCA
66 ATGGAAAGTGATCATTGGGGTTTTAATTAGTTTGAATATGATTCCA
2157765 AATAGTAGTTT-ATTTCCTTAATAAATATTTTGGTTTTTTTTACTATAAGATAATATTTTGTATA
1 AATAGTAGTTTAATTTCCTTAATAAATATTTTGGTTTTTTTTACTATAAGATAATATTTTGTATA
2157829 ATGGAAAGTGATCATTGGGGTTTTAATTAGTTTGAATATGATTCCA
66 ATGGAAAGTGATCATTGGGGTTTTAATTAGTTTGAATATGATTCCA
2157875 A
1 A
2157876 TGTTTGATAT
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
110 99 0.90
111 11 0.10
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.47
Consensus pattern (111 bp):
AATAGTAGTTTAATTTCCTTAATAAATATTTTGGTTTTTTTTACTATAAGATAATATTTTGTATA
ATGGAAAGTGATCATTGGGGTTTTAATTAGTTTGAATATGATTCCA
Found at i:2158372 original size:38 final size:40
Alignment explanation
Indices: 2158291--2158372 Score: 116
Period size: 38 Copynumber: 2.1 Consensus size: 40
2158281 AATTAATTAA
*
2158291 TTTTTTAAAATTTAAAAATTCATAAAAAATATAAAAAATG
1 TTTTTAAAAATTTAAAAATTCATAAAAAATATAAAAAATG
*
2158331 TTTTTAAAAATTT-AAAATT-ATAAAATATA-AAAAAATAG
1 TTTTTAAAAATTTAAAAATTCATAAAAAATATAAAAAAT-G
2158369 TTTT
1 TTTT
2158373 AGTTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 7 0.18
38 14 0.36
39 6 0.15
40 12 0.31
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (40 bp):
TTTTTAAAAATTTAAAAATTCATAAAAAATATAAAAAATG
Found at i:2158561 original size:1 final size:1
Alignment explanation
Indices: 2158555--2158579 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2158545 AGTTATTATG
2158555 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2158580 GTTGTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2159410 original size:81 final size:82
Alignment explanation
Indices: 2159305--2159469 Score: 323
Period size: 81 Copynumber: 2.0 Consensus size: 82
2159295 ATAATAATTT
2159305 TTATAGTAAAATATTACATAAATATCATCTTTTATTTAGTAAAAATAATATCATAAATTATGATT
1 TTATAGTAAAATATTACATAAATATCATCTTTTATTTAGTAAAAATAATATCATAAATTATGATT
2159370 ACATTCCCATAAAACCA
66 ACATTCCCATAAAACCA
2159387 TTATAGTAAAAT-TTACATAAATATCATCTTTTATTTAGTAAAAATAATATCATAAATTATGATT
1 TTATAGTAAAATATTACATAAATATCATCTTTTATTTAGTAAAAATAATATCATAAATTATGATT
2159451 ACATTCCCATAAAACCA
66 ACATTCCCATAAAACCA
2159468 TT
1 TT
2159470 TGGTTAACTA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 71 0.86
82 12 0.14
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (82 bp):
TTATAGTAAAATATTACATAAATATCATCTTTTATTTAGTAAAAATAATATCATAAATTATGATT
ACATTCCCATAAAACCA
Found at i:2161400 original size:7 final size:7
Alignment explanation
Indices: 2161390--2161420 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
2161380 TGGAGTTTGA
2161390 CCCCACT
1 CCCCACT
2161397 CCCCACT
1 CCCCACT
2161404 CCCCACT
1 CCCCACT
2161411 CCCCACT
1 CCCCACT
2161418 CCC
1 CCC
2161421 ATGCTCCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.74, G:0.00, T:0.13
Consensus pattern (7 bp):
CCCCACT
Found at i:2164707 original size:18 final size:20
Alignment explanation
Indices: 2164678--2164715 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2164668 AGAGGAGGAG
2164678 AATAAGAAGAAAA-GAAAAA
1 AATAAGAAGAAAAGGAAAAA
2164697 AATAA-AAGAAAAGGAAAAA
1 AATAAGAAGAAAAGGAAAAA
2164716 GGGAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (20 bp):
AATAAGAAGAAAAGGAAAAA
Found at i:2164755 original size:26 final size:26
Alignment explanation
Indices: 2164687--2164755 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
2164677 GAATAAGAAG
* *
2164687 AAAA-GAAAAAAATAAAAGAAAAGGA
1 AAAAGGAAAACAAGAAAAGAAAAGGA
* * *
2164712 AAAAGGGAAAGAATAAAAGAAAAGGA
1 AAAAGGAAAACAAGAAAAGAAAAGGA
*
2164738 AAAAGGAAAACTAGAAAA
1 AAAAGGAAAACAAGAAAA
2164756 ATAAATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.04
Consensus pattern (26 bp):
AAAAGGAAAACAAGAAAAGAAAAGGA
Found at i:2165415 original size:217 final size:218
Alignment explanation
Indices: 2165027--2165463 Score: 867
Period size: 217 Copynumber: 2.0 Consensus size: 218
2165017 TCTAGATTCG
2165027 AACCAATAAAACTCTTTCATATAAATATATTATATATAAATAATTTTAAATTATAAGTTCTTTCT
1 AACCAATAAAACTCTTTCATATAAATATATTATATATAAATAATTTTAAATTATAAGTTCTTTCT
2165092 TATAAATTTCTTTAAAGAAAAAAAACTCTAAAGAGCTTATAAAAATAATGAAGAAATTTACACTT
66 TATAAATTTCTTTAAAGAAAAAAAACTCTAAAGAGCTTATAAAAATAATGAAGAAATTTACACTT
2165157 ATTTTTAGTGTAAGTATGAGCTATGAAAGTGTTCTCTATTCCATGTAAGATTAAAATTTAATTGT
131 ATTTTTAGTGTAAGTATGAGCTATGAAAGTGTTCTCTATTCCATGTAAGATTAAAATTTAATTGT
2165222 ATAAACAATTGTTACATGTCAAC
196 ATAAACAATTGTTACATGTCAAC
2165245 AACCAATAAAAC-CTTTCATATAAATATATTATATATAAATAATTTTAAATTATAAGTTCTTTCT
1 AACCAATAAAACTCTTTCATATAAATATATTATATATAAATAATTTTAAATTATAAGTTCTTTCT
2165309 TATAAATTTCTTTAAAGAAAAAAAACTCTAAAGAGCTTATAAAAATAATGAAGAAATTTACACTT
66 TATAAATTTCTTTAAAGAAAAAAAACTCTAAAGAGCTTATAAAAATAATGAAGAAATTTACACTT
2165374 ATTTTTAGTGTAAGTATGAGCTATGAAAGTGTTCTCTATTCCATGTAAGATTAAAATTTAATTGT
131 ATTTTTAGTGTAAGTATGAGCTATGAAAGTGTTCTCTATTCCATGTAAGATTAAAATTTAATTGT
2165439 ATAAACAATTGTTACATGTCAAC
196 ATAAACAATTGTTACATGTCAAC
2165462 AA
1 AA
2165464 GATAAATATG
Statistics
Matches: 219, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
217 207 0.95
218 12 0.05
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (218 bp):
AACCAATAAAACTCTTTCATATAAATATATTATATATAAATAATTTTAAATTATAAGTTCTTTCT
TATAAATTTCTTTAAAGAAAAAAAACTCTAAAGAGCTTATAAAAATAATGAAGAAATTTACACTT
ATTTTTAGTGTAAGTATGAGCTATGAAAGTGTTCTCTATTCCATGTAAGATTAAAATTTAATTGT
ATAAACAATTGTTACATGTCAAC
Found at i:2170007 original size:13 final size:13
Alignment explanation
Indices: 2169991--2170015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2169981 AAAATAAGCC
2169991 CATAAATATTTAA
1 CATAAATATTTAA
2170004 CATAAATATTTA
1 CATAAATATTTA
2170016 CAGAGTGATT
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
CATAAATATTTAA
Found at i:2174438 original size:25 final size:25
Alignment explanation
Indices: 2174356--2174438 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
2174346 ATACATAAAT
*
2174356 ATAATACAAAAGCATGCAAATCACA
1 ATAATACAAAAGCATGCAAAACACA
* ** ** *
2174381 ATAATAATAAAATAAT--ATCACAATA
1 ATAAT-ACAAAAGCATGCAAAAC-ACA
2174406 ATATATACAAAAGCATGCAAAACACA
1 ATA-ATACAAAAGCATGCAAAACACA
2174432 ATAATAC
1 ATAATAC
2174439 CACTTAAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
24 2 0.05
25 21 0.52
26 14 0.35
27 3 0.08
ACGTcount: A:0.59, C:0.16, G:0.05, T:0.20
Consensus pattern (25 bp):
ATAATACAAAAGCATGCAAAACACA
Found at i:2181381 original size:123 final size:123
Alignment explanation
Indices: 2181234--2181495 Score: 524
Period size: 123 Copynumber: 2.1 Consensus size: 123
2181224 AGCCCGGCCC
2181234 GGCCCGGCCCATTTTTAAAATAAACATTAAAAAATTATTTTCAAAAAAATAAAAATAAAAAATAT
1 GGCCCGGCCCATTTTTAAAATAAACATTAAAAAATTATTTTCAAAAAAATAAAAATAAAAAATAT
2181299 ATATTTATTATATTCGGGCTGGGCCGGGCTGGGCCCGAGCCAAAAAAGTGGTGCCCGA
66 ATATTTATTATATTCGGGCTGGGCCGGGCTGGGCCCGAGCCAAAAAAGTGGTGCCCGA
2181357 GGCCCGGCCCATTTTTAAAATAAACATTAAAAAATTATTTTCAAAAAAATAAAAATAAAAAATAT
1 GGCCCGGCCCATTTTTAAAATAAACATTAAAAAATTATTTTCAAAAAAATAAAAATAAAAAATAT
2181422 ATATTTATTATATTCGGGCTGGGCCGGGCTGGGCCCGAGCCAAAAAAGTGGTGCCCGA
66 ATATTTATTATATTCGGGCTGGGCCGGGCTGGGCCCGAGCCAAAAAAGTGGTGCCCGA
2181480 GGCCCGGCCCATTTTT
1 GGCCCGGCCCATTTTT
2181496 TAAACGGGCC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 139 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (123 bp):
GGCCCGGCCCATTTTTAAAATAAACATTAAAAAATTATTTTCAAAAAAATAAAAATAAAAAATAT
ATATTTATTATATTCGGGCTGGGCCGGGCTGGGCCCGAGCCAAAAAAGTGGTGCCCGA
Found at i:2191035 original size:63 final size:62
Alignment explanation
Indices: 2190913--2191035 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
2190903 GAGAATCATT
* *
2190913 AGAAAAGTTGGTGTTATTTTAGCATTTTATGTAGTTTTTAAGCATATTTTTTTTCTTGCATAA
1 AGAAAAGTCGGTGTTATTTTAGCATTTTATGTAG-TTTTAAGCATATTTGTTTTCTTGCATAA
* * *
2190976 AGAATAAGTCGGTGTTATTTT-GACATTTTTTGTTA-TTTTAAGTATGTTTGTTTTCTTGCA
1 AGAA-AAGTCGGTGTTATTTTAG-CATTTTATG-TAGTTTTAAGCATATTTGTTTTCTTGCA
2191036 AGTTATACAT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
63 27 0.52
64 23 0.44
65 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (62 bp):
AGAAAAGTCGGTGTTATTTTAGCATTTTATGTAGTTTTAAGCATATTTGTTTTCTTGCATAA
Found at i:2193154 original size:18 final size:18
Alignment explanation
Indices: 2193127--2193161 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2193117 ATAAATATGA
*
2193127 AAATTAAATAAATAATAT
1 AAATTAAATAAAAAATAT
*
2193145 AAATTGAATAAAAAATA
1 AAATTAAATAAAAAATA
2193162 AAAACGTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAATTAAATAAAAAATAT
Found at i:2194840 original size:23 final size:23
Alignment explanation
Indices: 2194814--2194866 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
2194804 ATAAGTGCCA
2194814 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
2194837 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
2194860 CACTGAT
1 CACTGAT
2194867 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:2195115 original size:18 final size:17
Alignment explanation
Indices: 2195089--2195127 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2195079 ATTTTCCTTC
2195089 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
2195106 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
2195124 CACA
1 CACA
2195128 ATTATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:2197293 original size:19 final size:20
Alignment explanation
Indices: 2197261--2197298 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2197251 CAAGCTGACT
2197261 TTAGCTCAATTTCAACTCCC
1 TTAGCTCAATTTCAACTCCC
*
2197281 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAACTCC
2197299 AACTAGCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAACTCCC
Found at i:2197332 original size:20 final size:20
Alignment explanation
Indices: 2197282--2197334 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
2197272 TCAACTCCCT
*
2197282 TAGCTCATTTCAGCTCCAAC
1 TAGCTCATTTGAGCTCCAAC
* *
2197302 TAGCTCCTTTGAGCT-CAAT
1 TAGCTCATTTGAGCTCCAAC
2197321 TCAGCTCATTTGAG
1 T-AGCTCATTTGAG
2197335 AATTTCATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (20 bp):
TAGCTCATTTGAGCTCCAAC
Found at i:2203620 original size:23 final size:23
Alignment explanation
Indices: 2203587--2203707 Score: 179
Period size: 23 Copynumber: 5.3 Consensus size: 23
2203577 ATAAGTGCCA
*
2203587 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
2203610 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
2203633 CACTAAAATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* * *
2203656 CACTGATATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
2203679 CATTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
2203702 CACTGA
1 CACTGA
2203708 TCAATAACAC
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 85 1.00
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:2203960 original size:18 final size:17
Alignment explanation
Indices: 2203935--2203972 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2203925 TTTTCCTTCT
2203935 ACATTC-AATATTAATTC
1 ACATTCAAATA-TAATTC
2203952 ACATATCAAATATAATTC
1 ACAT-TCAAATATAATTC
2203970 ACA
1 ACA
2203973 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (17 bp):
ACATTCAAATATAATTC
Found at i:2209772 original size:18 final size:18
Alignment explanation
Indices: 2209745--2209779 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2209735 CAGTTCTGCT
*
2209745 CTGTTTCGTTCTACTTTG
1 CTGTTCCGTTCTACTTTG
*
2209763 CTGTTCCGTTCTGCTTT
1 CTGTTCCGTTCTACTTT
2209780 ACTCTGTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.26, G:0.17, T:0.54
Consensus pattern (18 bp):
CTGTTCCGTTCTACTTTG
Found at i:2209804 original size:15 final size:15
Alignment explanation
Indices: 2209786--2209820 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2209776 CTTTACTCTG
*
2209786 TTCTGTTCTGTCATA
1 TTCTGCTCTGTCATA
*
2209801 TTCTGCTCTGTCCTA
1 TTCTGCTCTGTCATA
2209816 TTCTG
1 TTCTG
2209821 GTGGGTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.26, G:0.14, T:0.51
Consensus pattern (15 bp):
TTCTGCTCTGTCATA
Found at i:2212150 original size:5 final size:6
Alignment explanation
Indices: 2212136--2212160 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2212126 TTTCAAAATG
2212136 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
2212161 GCAAAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:2218345 original size:18 final size:18
Alignment explanation
Indices: 2218322--2218372 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2218312 AATCGTGTCG
2218322 TTCATTTTCAAAACAGTA
1 TTCATTTTCAAAACAGTA
* * **
2218340 TTCATTTACAAATCTTTA
1 TTCATTTTCAAAACAGTA
*
2218358 TTCAATTTCAAAACA
1 TTCATTTTCAAAACA
2218373 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (18 bp):
TTCATTTTCAAAACAGTA
Found at i:2223047 original size:21 final size:21
Alignment explanation
Indices: 2223021--2223074 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2223011 TCATACACTT
2223021 TTCTTTTCTTTTGTTCCTT-AA
1 TTCTTTTCTTTTGTT-CTTCAA
*
2223042 TTCTTTTCATTTGTTCTTCAA
1 TTCTTTTCTTTTGTTCTTCAA
2223063 TT-TATTTCTTTT
1 TTCT-TTTCTTTT
2223075 ATTACAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.11, C:0.17, G:0.04, T:0.69
Consensus pattern (21 bp):
TTCTTTTCTTTTGTTCTTCAA
Found at i:2226502 original size:18 final size:18
Alignment explanation
Indices: 2226479--2226519 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2226469 CAAACTTTTG
2226479 TTTTTATATTT-TTATACA
1 TTTTTAT-TTTATTATACA
*
2226497 TTTTTATTTTATTATGCA
1 TTTTTATTTTATTATACA
2226515 TTTTT
1 TTTTT
2226520 TTATCAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATTTTATTATACA
Found at i:2228591 original size:21 final size:21
Alignment explanation
Indices: 2228567--2228606 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2228557 TTGTAGCTGA
2228567 ATTATTGATTCGGGTTTGATG
1 ATTATTGATTCGGGTTTGATG
2228588 ATTATTGATTCGGGTTTGA
1 ATTATTGATTCGGGTTTGA
2228607 AGCTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.05, G:0.28, T:0.47
Consensus pattern (21 bp):
ATTATTGATTCGGGTTTGATG
Found at i:2229293 original size:22 final size:22
Alignment explanation
Indices: 2229265--2229307 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2229255 ACGTTCACTA
2229265 TTGGTGTGTGGGTTTGGATGGT
1 TTGGTGTGTGGGTTTGGATGGT
2229287 TTGGTGTGTGGGTTTGGATGG
1 TTGGTGTGTGGGTTTGGATGG
2229308 GTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.00, G:0.51, T:0.44
Consensus pattern (22 bp):
TTGGTGTGTGGGTTTGGATGGT
Found at i:2230778 original size:26 final size:26
Alignment explanation
Indices: 2230712--2230784 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
2230702 TAGGGTTACG
** *
2230712 ATTTCAACTCTTATGAGCTTACCATT
1 ATTTCAACTCGAAGGAGCTTACCATT
*
2230738 A-TTCAGCTCGAAGGAGCTTACCATT
1 ATTTCAACTCGAAGGAGCTTACCATT
*
2230763 ATTTCAACTCGGAGGAGCTTAC
1 ATTTCAACTCGAAGGAGCTTAC
2230785 TGTTTACAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (26 bp):
ATTTCAACTCGAAGGAGCTTACCATT
Found at i:2233232 original size:24 final size:24
Alignment explanation
Indices: 2233200--2233247 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
2233190 AAAATTATAA
2233200 AAAAATTTTACAAAACA-AAATTTT
1 AAAAATTTTA-AAAACATAAATTTT
*
2233224 AAAAATTTTAAAATCATAAATTTT
1 AAAAATTTTAAAAACATAAATTTT
2233248 TTATTCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATTTTAAAAACATAAATTTT
Found at i:2233376 original size:17 final size:19
Alignment explanation
Indices: 2233345--2233382 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
2233335 TTGTTAATTT
2233345 TTAATAAAAATTTTATAAC
1 TTAATAAAAATTTTATAAC
2233364 TTAA-AAAAA-TTTATAAC
1 TTAATAAAAATTTTATAAC
2233381 TT
1 TT
2233383 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 5 0.26
19 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAATAAAAATTTTATAAC
Found at i:2233391 original size:13 final size:13
Alignment explanation
Indices: 2233372--2233403 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2233362 ACTTAAAAAA
2233372 ATTTATAACTTTT
1 ATTTATAACTTTT
*
2233385 TTTTATAACTTTT
1 ATTTATAACTTTT
2233398 ATTTAT
1 ATTTAT
2233404 GATTTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTATAACTTTT
Found at i:2236336 original size:13 final size:13
Alignment explanation
Indices: 2236320--2236360 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2236310 TTTACTCCAC
*
2236320 ATTTTTATATTAA
1 ATTTTAATATTAA
*
2236333 ATTTTAATATTCA
1 ATTTTAATATTAA
2236346 ATTTTAAT-TTAA
1 ATTTTAATATTAA
2236358 ATT
1 ATT
2236361 AACTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATTAA
Done.