Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000847.1 Hibiscus syriacus cultivar Beakdansim tig00001631_pilon, whole genome shotgun sequence
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: 265150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1909 original size:23 final size:23
Alignment explanation
Indices: 1856--1909 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1846 CCAAATCAAA
*
1856 CGGGGAATGTGGATTACATTACC
1 CGGGGAATATGGATTACATTACC
* *
1879 AGGGGAATATGGATTCCATT-CC
1 CGGGGAATATGGATTACATTACC
1901 CGGGAGAAT
1 CGGG-GAAT
1910 CTCACGTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (23 bp):
CGGGGAATATGGATTACATTACC
Found at i:3915 original size:18 final size:17
Alignment explanation
Indices: 3894--3927 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3884 TATTTGTTTT
3894 TATTAATAAATTAAAAAA
1 TATT-ATAAATTAAAAAA
*
3912 TATTATTAATTAAAAA
1 TATTATAAATTAAAAA
3928 TATCGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATTATAAATTAAAAAA
Found at i:4034 original size:3 final size:3
Alignment explanation
Indices: 4026--4100 Score: 100
Period size: 3 Copynumber: 25.3 Consensus size: 3
4016 TTAATATACT
* * *
4026 TAA TAA TAA TAA CAA TAA TAA TAA TAA CAA TAA CAA TAA TAA TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
4075 -AA T-A TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4101 TAACACCGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7962 original size:30 final size:31
Alignment explanation
Indices: 7928--7998 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
7918 GATGAGGGAC
* * *
7928 CAAAATATAAT-AATTTATAACATAAATTAT
1 CAAAATATAATAAAATAATAACATAAATGAT
* * *
7958 CAAAATTTAATAAAATAATAATATAAGTGAT
1 CAAAATATAATAAAATAATAACATAAATGAT
7989 CAAAATATAA
1 CAAAATATAA
7999 CTTTTTCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (31 bp):
CAAAATATAATAAAATAATAACATAAATGAT
Found at i:14763 original size:24 final size:24
Alignment explanation
Indices: 14736--14842 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
14726 AAACGGAGAT
*
14736 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
14760 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
14784 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
14808 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
14832 ATCAGAAATCA
1 ATCAGAAATCA
14843 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:14842 original size:48 final size:48
Alignment explanation
Indices: 14736--14844 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
14726 AAACGGAGAT
* * * *
14736 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
14784 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
14832 ATCAGAAATCAGA
1 ATCAGAAATCAGA
14845 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:17316 original size:7 final size:7
Alignment explanation
Indices: 17304--17335 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
17294 TGGTCAACTC
17304 CGGTCAA
1 CGGTCAA
17311 CGGTCAA
1 CGGTCAA
17318 CGGGTCAA
1 C-GGTCAA
17326 CGGTCAA
1 CGGTCAA
17333 CGG
1 CGG
17336 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:17325 original size:8 final size:8
Alignment explanation
Indices: 17305--17351 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
17295 GGTCAACTCC
17305 GGTCAAC-
1 GGTCAACG
17312 GGTCAACG
1 GGTCAACG
17320 GGTCAAC-
1 GGTCAACG
17327 GGTCAACG
1 GGTCAACG
17335 GGT---CG
1 GGTCAACG
17340 GGTCAACG
1 GGTCAACG
17348 GGTC
1 GGTC
17352 GGGTCGGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:17325 original size:15 final size:15
Alignment explanation
Indices: 17305--17351 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
17295 GGTCAACTCC
17305 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
17320 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
17335 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
17348 GGTC
1 GGTC
17352 GGGTCGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:17345 original size:13 final size:13
Alignment explanation
Indices: 17312--17356 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
17302 TCCGGTCAAC
*
17312 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
17327 GGTCAACGGGTCG
1 GGTCAACGGGTCG
17340 GGTCAACGGGTCG
1 GGTCAACGGGTCG
17353 GGTC
1 GGTC
17357 GGGTAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:17356 original size:18 final size:18
Alignment explanation
Indices: 17333--17396 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
17323 CAACGGTCAA
17333 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
17351 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTCAACGGGT
17369 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
17387 CGGGTCGGGT
1 CGGGTCGGGT
17397 TGTGACCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.11, C:0.19, G:0.52, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:19551 original size:24 final size:24
Alignment explanation
Indices: 19524--19630 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
19514 AAACGGAGAT
*
19524 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
19548 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
19572 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
19596 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
19620 ATCAGAAATCA
1 ATCAGAAATCA
19631 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:19630 original size:48 final size:48
Alignment explanation
Indices: 19524--19632 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
19514 AAACGGAGAT
* * * *
19524 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
19572 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
19620 ATCAGAAATCAGA
1 ATCAGAAATCAGA
19633 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:22104 original size:7 final size:7
Alignment explanation
Indices: 22092--22123 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
22082 TGGTCAACTC
22092 CGGTCAA
1 CGGTCAA
22099 CGGTCAA
1 CGGTCAA
22106 CGGGTCAA
1 C-GGTCAA
22114 CGGTCAA
1 CGGTCAA
22121 CGG
1 CGG
22124 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:22113 original size:8 final size:8
Alignment explanation
Indices: 22093--22139 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
22083 GGTCAACTCC
22093 GGTCAAC-
1 GGTCAACG
22100 GGTCAACG
1 GGTCAACG
22108 GGTCAAC-
1 GGTCAACG
22115 GGTCAACG
1 GGTCAACG
22123 GGT---CG
1 GGTCAACG
22128 GGTCAACG
1 GGTCAACG
22136 GGTC
1 GGTC
22140 GGGTCGGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:22113 original size:15 final size:15
Alignment explanation
Indices: 22093--22139 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
22083 GGTCAACTCC
22093 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
22108 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
22123 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
22136 GGTC
1 GGTC
22140 GGGTCGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:22133 original size:13 final size:13
Alignment explanation
Indices: 22100--22144 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
22090 TCCGGTCAAC
*
22100 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
22115 GGTCAACGGGTCG
1 GGTCAACGGGTCG
22128 GGTCAACGGGTCG
1 GGTCAACGGGTCG
22141 GGTC
1 GGTC
22145 GGGTAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:22144 original size:18 final size:18
Alignment explanation
Indices: 22121--22184 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
22111 CAACGGTCAA
22121 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
* *
22139 CGGGTCGGGTAAATGGGT
1 CGGGTCGGGTCAACGGGT
22157 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
22175 CGGGTCGGGT
1 CGGGTCGGGT
22185 TGTGACCGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.11, C:0.19, G:0.52, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:28914 original size:22 final size:22
Alignment explanation
Indices: 28897--28963 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
28887 CTCGTATAAA
28897 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
28919 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
28941 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
28963 T
1 T
28964 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:29224 original size:30 final size:31
Alignment explanation
Indices: 29183--29242 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
29173 TAGACATAGT
*
29183 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
29213 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
29243 AACTTTTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:29300 original size:29 final size:29
Alignment explanation
Indices: 29258--29327 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
29248 TTCTGCATAA
**
29258 TCATGTCATGTAATACATATAATATGAAT
1 TCATGTCATGTAATACATATAATACAAAT
* *
29287 TCATGTCATGTAATCCATTTAATACAAAT
1 TCATGTCATGTAATACATATAATACAAAT
29316 TCATGTCATGTA
1 TCATGTCATGTA
29328 TCATAATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
TCATGTCATGTAATACATATAATACAAAT
Found at i:29774 original size:68 final size:69
Alignment explanation
Indices: 29631--29782 Score: 209
Period size: 68 Copynumber: 2.2 Consensus size: 69
29621 TTTTCTCATG
* * * *
29631 GGGGAATCGGTT-CCTCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
*
29695 TGAG
66 TGAA
* * * *
29699 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGT
1 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
29763 TGAA
66 TGAA
29767 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
29783 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 38 0.51
69 36 0.49
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
TGAA
Found at i:29792 original size:21 final size:21
Alignment explanation
Indices: 29762--29804 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29752 ATCATATTCG
* *
29762 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
29783 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
29804 T
1 T
29805 AGCCCGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:30669 original size:2 final size:2
Alignment explanation
Indices: 30660--30732 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
30650 AAATATATTT
30660 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30701 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30733 ATGGTATGCA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:31160 original size:104 final size:104
Alignment explanation
Indices: 31026--31302 Score: 365
Period size: 104 Copynumber: 2.7 Consensus size: 104
31016 ATGTCATGTT
* * * * * *
31026 ATCACTATAAGTTATGCGACACAGACTACGTCATCAAATTTAGTTATGTGATACGTGTCATGTTT
1 ATCACTTTAAGTGATGCGACACATACTACGTCATCAAATTTAGTAATGTGACACGTGTCATGTCT
**
31091 TCACCTTGGATCTTTGAGTTACATGACATATATAATATC
66 TCACCTTAAATCTTTGAGTTACATGACATATATAATATC
* * * *
31130 ATCAGTTTGAGTGATGCGATACATACTACGTCATCAAATTTAGTAATGTGACATGTGTCATGTCT
1 ATCACTTTAAGTGATGCGACACATACTACGTCATCAAATTTAGTAATGTGACACGTGTCATGTCT
* *
31195 TCACCTTAAATCTTTGAGTTACATGACATATATTATGTC
66 TCACCTTAAATCTTTGAGTTACATGACATATATAATATC
* * * * * * *
31234 ATCACTTTAAGTGATGCAACACATACTACGTCATTAAATTTAGTGACGTGGCATGTGTAATGTCT
1 ATCACTTTAAGTGATGCGACACATACTACGTCATCAAATTTAGTAATGTGACACGTGTCATGTCT
31299 TCAC
66 TCAC
31303 TTTGAGTGGT
Statistics
Matches: 150, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 150 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (104 bp):
ATCACTTTAAGTGATGCGACACATACTACGTCATCAAATTTAGTAATGTGACACGTGTCATGTCT
TCACCTTAAATCTTTGAGTTACATGACATATATAATATC
Found at i:34894 original size:2 final size:2
Alignment explanation
Indices: 34887--34912 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34877 CCTACCTACC
34887 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
34913 CATCAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:38153 original size:8 final size:8
Alignment explanation
Indices: 38142--38181 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
38132 TATATTCAAA
38142 TATTATTT
1 TATTATTT
38150 TATTATTT
1 TATTATTT
* *
38158 TAATATAT
1 TATTATTT
38166 TATTATTAT
1 TATTATT-T
38175 TATTATT
1 TATTATT
38182 AAAATGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TATTATTT
Found at i:38155 original size:3 final size:3
Alignment explanation
Indices: 38142--38182 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
38132 TATATTCAAA
*
38142 TAT TAT T-T TAT TAT T-T TAA TA- TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
38183 AAATGTATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
2 6 0.18
3 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:38363 original size:20 final size:21
Alignment explanation
Indices: 38334--38372 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
38324 ATATAAAAAT
38334 ATATATTTTTGA-ATAAATGAA
1 ATATATTTTT-ACATAAATGAA
38355 ATATA-TTTTACATAAATG
1 ATATATTTTTACATAAATG
38373 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (21 bp):
ATATATTTTTACATAAATGAA
Found at i:45437 original size:19 final size:19
Alignment explanation
Indices: 45413--45449 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45403 ATGACCAACA
* *
45413 AAATCGTAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
45432 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
45450 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:45537 original size:20 final size:20
Alignment explanation
Indices: 45479--45538 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
45469 CCAGATTCGT
*
45479 AACGCGATTTTGACTATCGC
1 AACGCGATTATGACTATCGC
* * *
45499 AATGCGAATATGTA-AATCGC
1 AACGCGATTATG-ACTATCGC
*
45519 AACGCGATTCTGACTATCGC
1 AACGCGATTATGACTATCGC
45539 GTTGCGATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (20 bp):
AACGCGATTATGACTATCGC
Found at i:45761 original size:22 final size:22
Alignment explanation
Indices: 45713--45762 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
45703 CTACGATGAC
*
45713 ATCCATCCCCATCTCCAACGAA
1 ATCCGTCCCCATCTCCAACGAA
* **
45735 ATCCGTCCCTATCTCCGGCGAA
1 ATCCGTCCCCATCTCCAACGAA
45757 ATCCGT
1 ATCCGT
45763 TTATCTCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.42, G:0.12, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAACGAA
Found at i:46167 original size:20 final size:20
Alignment explanation
Indices: 46138--46181 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46128 GCGATTTTAG
46138 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
46158 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
46178 TTTC
1 TTTC
46182 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:46706 original size:20 final size:20
Alignment explanation
Indices: 46670--46721 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
46660 GGTAACTTTT
*
46670 GCAACGCTAAA-CTCAAAATC
1 GCAACGCGAAAGC-CAAAATC
*
46690 GCAATGCGAAAGCCAAAATC
1 GCAACGCGAAAGCCAAAATC
46710 GCAACGCGAAAG
1 GCAACGCGAAAG
46722 TCAATTCGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.44, C:0.27, G:0.19, T:0.10
Consensus pattern (20 bp):
GCAACGCGAAAGCCAAAATC
Found at i:46737 original size:19 final size:20
Alignment explanation
Indices: 46715--46757 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
46705 AAATCGCAAC
*
46715 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
46734 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
46754 GCGA
1 GCGA
46758 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:46794 original size:20 final size:20
Alignment explanation
Indices: 46766--46820 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
46756 GATTTTCTCG
*
46766 TTGCGATAGTCAAATTCGCA
1 TTGCAATAGTCAAATTCGCA
*
46786 TTGCAATAGTCAAATTCGCG
1 TTGCAATAGTCAAATTCGCA
*
46806 TTGCAATATTCAAAT
1 TTGCAATAGTCAAAT
46821 GAATGTGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
TTGCAATAGTCAAATTCGCA
Found at i:47014 original size:18 final size:18
Alignment explanation
Indices: 46991--47025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46981 AAGCCGGTTG
*
46991 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
47009 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
47026 GTCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:49323 original size:24 final size:24
Alignment explanation
Indices: 49289--49342 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
49279 CTGAAACATC
49289 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
49313 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
49337 ATCAAA
1 ATCAAA
49343 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:49356 original size:24 final size:24
Alignment explanation
Indices: 49289--49356 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
49279 CTGAAACATC
* * *
49289 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
49313 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
49337 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
49357 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:50628 original size:31 final size:31
Alignment explanation
Indices: 50569--50643 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
50559 TAAATTAATT
* * *
50569 TTAATTTATTCTTTTAAAATTTAGATAAAATA
1 TTAATTTAAT-TTTTAAAATTTAAATAAAACA
*
50601 TTAATTTAATTTTTAAATTTTAAATAAAACA
1 TTAATTTAATTTTTAAAATTTAAATAAAACA
*
50632 TCAATTTAATTT
1 TTAATTTAATTT
50644 CTGAATTCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 29 0.76
32 9 0.24
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (31 bp):
TTAATTTAATTTTTAAAATTTAAATAAAACA
Found at i:54884 original size:21 final size:20
Alignment explanation
Indices: 54860--54906 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
54850 AAAATGAATT
54860 AAAAAATTTACTT-AAAAATCC
1 AAAAAA-TT-CTTAAAAAATCC
*
54881 AAAATAATTCTTAAAAAATCT
1 AAAA-AATTCTTAAAAAATCC
54902 AAAAA
1 AAAAA
54907 TTAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAATTCTTAAAAAATCC
Found at i:54916 original size:20 final size:20
Alignment explanation
Indices: 54893--54931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54883 AATAATTCTT
* *
54893 AAAAAATCTAAAAATTAATA
1 AAAAAACCTAAAAACTAATA
*
54913 AAAATACCTAAAAACTAAT
1 AAAAAACCTAAAAACTAAT
54932 TTTAAAGAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAACCTAAAAACTAATA
Found at i:57163 original size:3 final size:3
Alignment explanation
Indices: 57152--57221 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
57142 TTTTTTTTCG
** * *
57152 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TCA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57198 TTA TT- TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA
57222 CAAATTTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:57778 original size:20 final size:20
Alignment explanation
Indices: 57741--57779 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57731 GAGACAGATA
* *
57741 AGAAAAGAAAATCAGAGAGG
1 AGAAAAAAAAAACAGAGAGG
*
57761 AGAAAAAAAAAACGGAGAG
1 AGAAAAAAAAAACAGAGAG
57780 AGGTGGGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.05, G:0.28, T:0.03
Consensus pattern (20 bp):
AGAAAAAAAAAACAGAGAGG
Found at i:58418 original size:19 final size:19
Alignment explanation
Indices: 58372--58418 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
58362 CATTAATTTG
*
58372 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
58392 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
58412 TATATTT
1 TATATTT
58419 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:59602 original size:17 final size:18
Alignment explanation
Indices: 59580--59613 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59570 AAGTCGAGTA
*
59580 TATTTTACTAAT-TAATT
1 TATTTTAATAATGTAATT
59597 TATTTTAATAATGTAAT
1 TATTTTAATAATGTAAT
59614 GTGTGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TATTTTAATAATGTAATT
Found at i:60358 original size:29 final size:30
Alignment explanation
Indices: 60316--60383 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 30
60306 TTATTGAAAT
60316 TTTTAATTGCTTTG-TTTTTTCGTACTAACA
1 TTTT-ATTGCTTTGTTTTTTTCGTACTAACA
60346 TTTTATTGCTTTGTTTTTTTTCGTACTAACA
1 TTTTATTGCTTTG-TTTTTTTCGTACTAACA
60377 TTTTATT
1 TTTTATT
60384 TTTGGCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 9 0.25
30 4 0.11
31 23 0.64
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.62
Consensus pattern (30 bp):
TTTTATTGCTTTGTTTTTTTCGTACTAACA
Found at i:62594 original size:26 final size:25
Alignment explanation
Indices: 62563--62642 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
62553 CCAATTTTTG
62563 ACATTCTATCTCTTTGAGACCTTG-A
1 ACATTCT-TCTCTTTGAGACCTTGAA
* *
62588 A-A-TATTCT-TTT-CGACCTTGAA
1 ACATTCTTCTCTTTGAGACCTTGAA
*
62609 ACATTCCCTCTCTTTGAGACCTTGAA
1 ACATT-CTTCTCTTTGAGACCTTGAA
62635 ACATTCTT
1 ACATTCTT
62643 TCCACTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 7 0.16
21 5 0.12
22 4 0.09
23 3 0.07
24 4 0.09
25 6 0.14
26 14 0.33
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (25 bp):
ACATTCTTCTCTTTGAGACCTTGAA
Found at i:63265 original size:11 final size:10
Alignment explanation
Indices: 63246--63359 Score: 61
Period size: 12 Copynumber: 10.2 Consensus size: 10
63236 AGATCCAATC
63246 AAAAACAAAG
1 AAAAACAAAG
63256 AAAAATCAAAGAG
1 AAAAA-C-AA-AG
63269 AAAAGAGCAAAG
1 AAAA-A-CAAAG
63281 AAAAA-AACA-
1 AAAAACAA-AG
* *
63290 AAGAGCAGAGAG
1 AAAAACA-A-AG
63302 AAAAATCAAAG
1 AAAAA-CAAAG
63313 CAAAAACAAAG
1 -AAAAACAAAG
63324 AAAAATCAAAG
1 AAAAA-CAAAG
63335 AAAAAGAGCAAAG
1 -AAAA-A-CAAAG
*
63348 AAAAGCAAAG
1 AAAAACAAAG
63358 AA
1 AA
63360 CAAAAGAGGA
Statistics
Matches: 83, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
9 5 0.06
10 19 0.23
11 16 0.19
12 25 0.30
13 16 0.19
14 2 0.02
ACGTcount: A:0.71, C:0.10, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:63294 original size:19 final size:20
Alignment explanation
Indices: 63270--63312 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
63260 ATCAAAGAGA
63270 AAAGAGCAAAGA-AAAAAAC
1 AAAGAGCAAAGAGAAAAAAC
* *
63289 AAAGAGCAGAGAGAAAAATC
1 AAAGAGCAAAGAGAAAAAAC
63309 AAAG
1 AAAG
63313 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.67, C:0.09, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAGCAAAGAGAAAAAAC
Found at i:63301 original size:26 final size:25
Alignment explanation
Indices: 63251--63351 Score: 85
Period size: 22 Copynumber: 4.4 Consensus size: 25
63241 CAATCAAAAA
*
63251 CAAAGAAAAATCAAAGAGAAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
*
63276 CAAAGAAAAAAACAAAGAG--CAGAG
1 CAAAG-AAAAAACAAAGAGAAAAGAG
* *
63300 ---AGAAAAATCAAAG-CAAAA-A-
1 CAAAGAAAAAACAAAGAGAAAAGAG
*
63319 CAAAGAAAAATCAAAGA-AAAAGAG
1 CAAAGAAAAAACAAAGAGAAAAGAG
63343 CAAAGAAAA
1 CAAAGAAAA
63352 GCAAAGAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
20 11 0.18
21 3 0.05
22 17 0.27
23 1 0.02
24 13 0.21
25 5 0.08
26 12 0.19
ACGTcount: A:0.70, C:0.10, G:0.17, T:0.03
Consensus pattern (25 bp):
CAAAGAAAAAACAAAGAGAAAAGAG
Found at i:63354 original size:10 final size:11
Alignment explanation
Indices: 63246--63359 Score: 69
Period size: 11 Copynumber: 10.2 Consensus size: 11
63236 AGATCCAATC
63246 AAAAA-CAAAG
1 AAAAAGCAAAG
*
63256 AAAAATCAAAGAG
1 AAAAAGC-AA-AG
63269 AAAAGAGCAAAG
1 AAAA-AGCAAAG
*
63281 -AAAA--AAAC
1 AAAAAGCAAAG
*
63289 AAAGAGCAGAGAG
1 AAAAAGCA-A-AG
*
63302 AAAAATCAAAG
1 AAAAAGCAAAG
63313 CAAAAA-CAAAG
1 -AAAAAGCAAAG
*
63324 AAAAATCAAAG
1 AAAAAGCAAAG
63335 AAAAAGAGCAAAG
1 -AAAA-AGCAAAG
63348 -AAAAGCAAAG
1 AAAAAGCAAAG
63358 AA
1 AA
63360 CAAAAGAGGA
Statistics
Matches: 83, Mismatches: 7, Indels: 27
0.71 0.06 0.23
Matches are distributed among these distances:
8 3 0.04
9 3 0.04
10 18 0.22
11 21 0.25
12 15 0.18
13 21 0.25
14 2 0.02
ACGTcount: A:0.71, C:0.10, G:0.17, T:0.03
Consensus pattern (11 bp):
AAAAAGCAAAG
Found at i:64574 original size:16 final size:16
Alignment explanation
Indices: 64535--64578 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
64525 GAGAAAAGTA
*
64535 TACACAAACATACATC
1 TACACATACATACATC
* * *
64551 AACTCATACATACATG
1 TACACATACATACATC
64567 TACACATACATA
1 TACACATACATA
64579 ATATATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (16 bp):
TACACATACATACATC
Found at i:64982 original size:36 final size:36
Alignment explanation
Indices: 64930--65047 Score: 141
Period size: 36 Copynumber: 3.3 Consensus size: 36
64920 TGAGAATTTT
* * *
64930 AAAACAAATTTTTGTCTCGCTTGATACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATTGAGACAATTTCTTTA
* *
64967 AAAGCAAATTTTGTCTCGATTGAGACAGCTTTC--TA
1 AAAACAAATTTTGTCTCGATTGAGACA-ATTTCTTTA
* *
65002 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
65038 AAAACAAATT
1 AAAACAAATT
65048 CCGCCTCACT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
34 4 0.06
35 26 0.38
36 28 0.41
37 11 0.16
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATTGAGACAATTTCTTTA
Found at i:65063 original size:71 final size:72
Alignment explanation
Indices: 64930--65064 Score: 166
Period size: 71 Copynumber: 1.9 Consensus size: 72
64920 TGAGAATTTT
* ** * ** * *
64930 AAAACAAATTTTTGTCTCGCTTGATACAATTTCTTTCAAAGCAAATTTTGTCTCGATTGAGACAG
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
64995 CTTTCTA
66 CTTTCTA
*
65002 AAAACAAA-TTTTGTCTCGTTTGAGACAATTTCTTGAAAAACAAATTCCGCCTC-ACTGGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGA-TGGAGACA
65065 TTTTTCCTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
70 1 0.02
71 44 0.83
72 8 0.15
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAATTTCTTGAAAAACAAATTCCGCCTCGATGGAGACAG
CTTTCTA
Found at i:65231 original size:36 final size:36
Alignment explanation
Indices: 65150--65231 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
65140 ATTTTGTTTT
* * *
65150 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
* * *
65186 ACTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAACTTCGTATC
65222 GCTTGAGACA
1 GCTTGAGACA
65232 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 35 0.95
37 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAACTTCGTATC
Found at i:65331 original size:105 final size:102
Alignment explanation
Indices: 65205--65443 Score: 281
Period size: 105 Copynumber: 2.3 Consensus size: 102
65195 AAATTCTCTT
* *
65205 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAACCTT-GAATTTGATTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAA-CTTCGAATTTGATTCAC
*
65269 -TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
65 ATT-AAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * * *
65310 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACA
* *
65375 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
65412 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
65444 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 6 0.05
105 75 0.64
106 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAACTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:65434 original size:36 final size:36
Alignment explanation
Indices: 65389--65508 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
65379 ACAAAGTTGA
**
65389 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
65425 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * * * *
65461 TCTCATTTGAGACTATATCT-T-AAAGCAAAGTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
65495 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
65509 TCATTTTCTC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 21 0.30
35 8 0.12
36 40 0.58
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:65825 original size:28 final size:28
Alignment explanation
Indices: 65756--65851 Score: 142
Period size: 29 Copynumber: 3.5 Consensus size: 28
65746 CTCTTGAAAA
65756 AAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAATCTTTGAGTTTGTTCCTTTTGAAT
*
65784 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 -AAAATCTTTGAGTTTGTTCCTTTTGAAT
* *
65813 AAAATCGTTGAG-TTGTTTCTTTTGAA-
1 AAAATCTTTGAGTTTGTTCCTTTTGAAT
65839 AAAATCTTTGAGT
1 AAAATCTTTGAGT
65852 CTATTTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 11 0.18
27 13 0.21
28 10 0.16
29 27 0.44
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (28 bp):
AAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:65938 original size:52 final size:52
Alignment explanation
Indices: 65860--66016 Score: 278
Period size: 52 Copynumber: 3.0 Consensus size: 52
65850 GTCTATTTAT
65860 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAATCTTTGAG
1 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAATCTTTGAG
65912 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAATCTTTGAG
1 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAATCTTTGAG
* * *
65964 TCTGAAACAAAGTGTTGTCTCTCTTGACACAATTTCGTGAAAAAATCTTTGAG
1 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAG
66017 ATTGTTTTTT
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 88 0.87
53 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (52 bp):
TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAATCTTTGAG
Found at i:66067 original size:30 final size:32
Alignment explanation
Indices: 66004--66069 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 32
65994 AATTTCGTGA
* * *
66004 AAAAATCTTTGAGATTGTTTTTTTTTTGAAAC
1 AAAAATCTTTGAGATTGTGTTTCTTTGGAAAC
66036 AAAAATCTTTGAG-TT-TGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTGTTTCTTTGGAAAC
66066 AAAA
1 AAAA
66070 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 16 0.52
31 2 0.06
32 13 0.42
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (32 bp):
AAAAATCTTTGAGATTGTGTTTCTTTGGAAAC
Found at i:66393 original size:120 final size:118
Alignment explanation
Indices: 66225--66447 Score: 265
Period size: 120 Copynumber: 1.9 Consensus size: 118
66215 TTAACAAAAT
* * *
66225 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTCTCTCTTGAGACAGTTTCTAAT-GAAAAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGGAAAAA
66289 CTAACTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGATC
66 -T--C-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
* ** **
66345 CATCTTTGAGTCTGTTTCTTTTGAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTTTTGGAAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTATCTCTT-AAGACAATTTCTAATGGAAA
* * *
66408 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
64 AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
66448 TTGAGACAAC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
117 21 0.24
118 12 0.14
119 7 0.08
120 38 0.43
121 10 0.11
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (118 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTGTATCTCTTAAGACAATTTCTAATGGAAAAA
TCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGATC
Found at i:66472 original size:63 final size:65
Alignment explanation
Indices: 66345--66703 Score: 201
Period size: 63 Copynumber: 5.6 Consensus size: 65
66335 AGATGTGATC
* * *
66345 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTG-GAAAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAAAAA
* * *
66409 -ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTT-GAGACAACTTCTTTTGAAAAAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTG-AAAAA
66472 A
65 A
* * ** * ** * *
66473 CATCTTTGAGATC-GTTT-CTATTAAAAC-AAATTCTATCTCACATGAGACAGTTTCCTTT-CAA
1 CATCTTTGAG-TCTGTTTCCT-TTGAAACAAAATTTTATCTCTTA-AAGACAACTTCTTTTGAAA
***
66534 TGT
63 AAA
* * * * * ** * *
66537 CCTATTTGAGTC-GTTTCCTTTGAAAC-GAATTTTGTCTCTTGAA-ACATTTTCTCTTAAAACAA
1 CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAA-AA
66599 GA
65 -A
* * ** * **
66601 TCATCTTTGAGTTTGTTT-CTCTGGAAACAAGGTTTTATCGCTTAAA-ACAGTTTCTTTTGAAGA
1 -CATCTTTGAGTCTGTTTCCT-TTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAA-A
66664 AAA
63 AAA
*
66667 -ATC--TGAGTCTGTTT-CTTTGGAAACAAAATTTTGTCTC
1 CATCTTTGAGTCTGTTTCCTTT-GAAACAAAATTTTATCTC
66704 ACTAAGATAC
Statistics
Matches: 223, Mismatches: 55, Indels: 36
0.71 0.18 0.11
Matches are distributed among these distances:
61 10 0.04
62 43 0.19
63 59 0.26
64 31 0.14
65 30 0.13
66 24 0.11
67 25 0.11
68 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (65 bp):
CATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTTAAAGACAACTTCTTTTGAAAAAA
Found at i:66681 original size:128 final size:126
Alignment explanation
Indices: 66345--66703 Score: 316
Period size: 128 Copynumber: 2.8 Consensus size: 126
66335 AGATGTGATC
* * * *
66345 CATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTG--GAAA
1 CATCTTTGAGTTTGTTTCTATTGAAAC-AAATTTTATCACTTAAA-ACAGTTTCTTTTGAAGAAA
* * *
66408 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAGACAACTTCTTTTGAAAAAAA
64 AATC--TGAGTCTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTTGAAAAAAA
* * * * * * * * * **
66473 CATCTTTGAGATCGTTTCTATTAAAACAAATTCTATCTCACATGAGACAGTTTCCTTTCAATGTC
1 CATCTTTGAGTTTGTTTCTATTGAAACAAATT-T-TATCACTTAAAACAGTTTCTTTTGAA-GAA
** * * **
66538 CTATTTGAGTC-GTTTCCTTTGAAAC-GAATTTTGTCTCTTGAAACATTTTCTCTT-AAAACAAG
63 AAATCTGAGTCTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTTGAAAA-AA-
66600 A
126 A
* * * *
66601 TCATCTTTGAGTTTGTTTCTCTGGAAACAAGGTTTTATCGCTTAAAACAGTTTCTTTTGAAGAAA
1 -CATCTTTGAGTTTGTTTCTATTGAAACAA-ATTTTATCACTTAAAACAGTTTCTTTTGAAGAAA
66666 AATCTGAGTCTGTTT-CTTTGGAAACAAAATTTTGTCTC
64 AATCTGAGTCTGTTTCCTTT-GAAACAAAATTTTGTCTC
66704 ACTAAGATAC
Statistics
Matches: 176, Mismatches: 43, Indels: 23
0.73 0.18 0.10
Matches are distributed among these distances:
126 4 0.02
127 44 0.25
128 76 0.43
129 47 0.27
130 2 0.01
131 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (126 bp):
CATCTTTGAGTTTGTTTCTATTGAAACAAATTTTATCACTTAAAACAGTTTCTTTTGAAGAAAAA
TCTGAGTCTGTTTCCTTTGAAACAAAATTTTGTCTCTTGAAACAACTTCTCTTGAAAAAAA
Found at i:66887 original size:36 final size:34
Alignment explanation
Indices: 66836--66931 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
66826 TTTGAGAAAA
* * * *
66836 ATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTACC
1 ATCTTTGAATCTGTTTCTTT-GAAACAAAA-TAAAC
*
66872 ATCTTTGAATCTGTTTCCCTTGAAACAAAATAAAC
1 ATCTTTGAATCTGTTT-CTTTGAAACAAAATAAAC
66907 ATCTTTGAGATC-GTTTCTCTTGAAA
1 ATCTTTGA-ATCTGTTTCT-TTGAAA
66932 TGAATTTTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 1 0.02
35 21 0.41
36 26 0.51
37 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (34 bp):
ATCTTTGAATCTGTTTCTTTGAAACAAAATAAAC
Found at i:66923 original size:35 final size:36
Alignment explanation
Indices: 66857--66931 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
66847 TGTTTCTTTG
* *
66857 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
66893 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
66928 GAAA
1 GAAA
66932 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:67173 original size:28 final size:28
Alignment explanation
Indices: 67102--67183 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
67092 TAAAAATATC
* * *
67102 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
67130 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
67158 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
67184 CATAACTCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:67268 original size:46 final size:44
Alignment explanation
Indices: 67201--67483 Score: 241
Period size: 46 Copynumber: 6.6 Consensus size: 44
67191 CCATAGATAA
* *
67201 CCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTAAAGATGG
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCT--AGATGG
* *
67247 CCAGCCGTCCTCATCACGTAGGAACCGTGCCATC-CCTCGA---
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTAGATGG
* * * * **
67287 CCAGATC-TCTTCATCACGTAGGAGCCGTGTCA-CCCCTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCACCTAGATGG
* *
67330 CCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGG
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCT--AGATGG
* *
67376 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATC-CCTCGA---
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTAGATGG
* * * * **
67416 CCAGATC-TCTTCATCACGTATGAGCCGTGTCA-C-CCTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCATCACCTAGATGG
67458 CCAGCCGTCCTCATCACGTAGGAACC
1 CCAGCCGTCCTCATCACGTAGGAACC
67484 TAGTTATCAC
Statistics
Matches: 194, Mismatches: 29, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
39 7 0.04
40 57 0.29
41 4 0.02
42 21 0.11
43 29 0.15
44 4 0.02
45 6 0.03
46 66 0.34
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.22
Consensus pattern (44 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCACCTAGATGG
Found at i:67424 original size:129 final size:129
Alignment explanation
Indices: 67194--67586 Score: 549
Period size: 129 Copynumber: 3.0 Consensus size: 129
67184 CATAACTCCA
* *
67194 TAGATAACCAGCCGTCCTCATCACGTAGGAACTGTGTTATCACCTAAAGATGGCCAGCCGTCCTC
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAGACGTCCTC
* *
67259 ATCACGTAGGAACCGTGCCATCCCTCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCC
66 ATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCC
* *
67323 TAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAGTCGTCCTC
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAGACGTCCTC
67388 ATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAGCCGTGTCA-CCC
66 ATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCC
* *
67451 TAGATAACCAGCCGTCCTCATCACGTAGGAACC-TAGTTATCACCCTTCCTAAAGATGACCAAAA
1 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGT-GTTATCA-----CCTAAAGATGGCC-AGA
* * * * * * *
67515 C-TCTTCGTCACGTATGAGCCGTGTCATCCCCCGACCAGATTTTTTTCATCACGTATGAGCCGTG
59 CGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGA-TCTCTTCATCACGTATGAGCCGTG
67579 TCATCCCC
123 TCA-CCCC
67587 CGACCAGATT
Statistics
Matches: 238, Mismatches: 16, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
127 1 0.00
128 42 0.18
129 120 0.50
133 45 0.19
134 27 0.11
136 3 0.01
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (129 bp):
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAGACGTCCTC
ATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCC
Found at i:67633 original size:214 final size:208
Alignment explanation
Indices: 67386--67789 Score: 641
Period size: 214 Copynumber: 1.9 Consensus size: 208
67376 CCAGTCGTCC
*
67386 TCATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TCATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAACCGTGTCACCC
67451 TAGATAACCAGCCGTCCTCATCACGTAGGAACC-TAGTTATCACCCTTCCTAAAGATGACCAAAA
66 TAGATAACCAGCCGTCCTCATCACGTAGGAACCGT-GTTATCA-CCTT--T--AGATGACCAAAA
* * *
67515 CTCTTCGTCACGTATGAGCCGTGTCATCCCCCGACCAGATTTTTTTCATCACGTATGAGCCGTGT
125 CTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGA-TCTCTTCATCACGTATGAGCCGTGT
67580 CATCCCCCGACCAGATTTTT
189 CATCCCCCGACCAGATTTTT
* *
67600 TCATCACGTATGAGCCGTGTCATTCCC-CGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
1 TCATCACGTAGGAACCGTGTCA-TCCCTCGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
* *
67664 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTT
65 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAAAACTCTT
*
67729 CATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCA
130 CATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCA
67790 CCCTAGATAA
Statistics
Matches: 179, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
208 25 0.14
209 47 0.26
211 1 0.01
213 4 0.02
214 97 0.54
215 5 0.03
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (208 bp):
TCATCACGTAGGAACCGTGTCATCCCTCGACCAGATCTCTTCATCACGTATGAACCGTGTCACCC
TAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGACCAAAACTCTTC
ATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCATCCCC
CGACCAGATTTTT
Found at i:67750 original size:128 final size:125
Alignment explanation
Indices: 67599--67873 Score: 451
Period size: 128 Copynumber: 2.2 Consensus size: 125
67589 ACCAGATTTT
67599 TTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
1 TTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
* *
67664 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTC
66 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTG---TCACCCTTAGATGACCAGAACTC
*
67727 TTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCACC
1 TTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
* *
67792 CTAGATAACCAGCCGTCCTCATCACGTAGGAGCCGTGTCACCCTTAGATGACCAGACCTC
66 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCACCCTTAGATGACCAGAACTC
** *
67852 TTCATTGCGTATGAGCAGTGTC
1 TTCATCACGTATGAGCCGTGTC
67874 GTCCCCACCA
Statistics
Matches: 139, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
125 39 0.28
128 100 0.72
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (125 bp):
TTCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAACCGTGTCACC
CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTCACCCTTAGATGACCAGAACTC
Found at i:67873 original size:43 final size:42
Alignment explanation
Indices: 67285--67873 Score: 293
Period size: 40 Copynumber: 13.8 Consensus size: 42
67275 GCCATCCCTC
* *
67285 GACCAGATCTCTTCATCACGTAGGAGCCGTGTCACCCCTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGAT
* * * * *
67328 AACCA-ACCGTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCCGTGTCA-C-CCT--AGAT
* * * * * * *
67374 GGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCT---C
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGAT
*
67414 GACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
* * * * *
67456 AACCAG-CCGTCCTCATCACGTAGGAACCTAGTTATCACCCTTCCTAAAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCC--G-TGTCA--C--CCT--AGAT
* * * **
67507 GACCAAAACTCTTCGTCACGTATGAGCCGTGTCATCCC---CC
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGAT
** * **
67547 GACCAGATTTTTTTCATCACGTATGAGCCGTGTCATCCC---CC
1 GACCAGA-CCTCTTCATCACGTATGAGCCGTGTCA-CCCTAGAT
** * *
67588 GACCAGATTTTTTCATCACGTATGAGCCGTGTCATTCCC----C
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCA--CCCTAGAT
* *
67628 GACCAGATCTCTTCATCACGTATGAACCGTGTCACCCTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
* * * * *
67670 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCCGTG---TCACC-CTAGAT
* * *
67716 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC----C
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCA--CCCTAGAT
*
67756 GACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
* * *
67798 AACCAG-CCGTCCTCATCACGTAGGAGCCGTGTCACCCTTAGAT
1 GACCAGACC-TCTTCATCACGTATGAGCCGTGTCACCC-TAGAT
** *
67841 GACCAGACCTCTTCATTGCGTATGAGCAGTGTC
1 GACCAGACCTCTTCATCACGTATGAGCCGTGTC
67874 GTCCCCACCA
Statistics
Matches: 434, Mismatches: 72, Indels: 80
0.74 0.12 0.14
Matches are distributed among these distances:
38 6 0.01
39 4 0.01
40 124 0.29
41 43 0.10
42 79 0.18
43 59 0.14
44 6 0.01
45 16 0.04
46 61 0.14
47 4 0.01
48 4 0.01
49 4 0.01
51 23 0.05
52 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (42 bp):
GACCAGACCTCTTCATCACGTATGAGCCGTGTCACCCTAGAT
Found at i:68041 original size:3 final size:3
Alignment explanation
Indices: 68030--68093 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
68020 TTTTTTTTCG
* * *
68030 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TCA TCA -TC TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
68075 TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA
68094 CAAATTTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:68647 original size:19 final size:20
Alignment explanation
Indices: 68611--68648 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
68601 GAGACAGATA
*
68611 AGAAAAGAAAATCAGAGAGG
1 AGAAAAGAAAAACAGAGAGG
*
68631 AGAAAA-AAAAACGGAGAG
1 AGAAAAGAAAAACAGAGAG
68649 AGGTGGGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.03
Consensus pattern (20 bp):
AGAAAAGAAAAACAGAGAGG
Found at i:69289 original size:19 final size:19
Alignment explanation
Indices: 69243--69289 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
69233 CATTAATTTG
*
69243 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
69263 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
69283 TATATTT
1 TATATTT
69290 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:70461 original size:17 final size:18
Alignment explanation
Indices: 70439--70472 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
70429 AAGTCGAGTA
*
70439 TATTTTACTAAT-TAATT
1 TATTTTAATAATGTAATT
70456 TATTTTAATAATGTAAT
1 TATTTTAATAATGTAAT
70473 GTGTGTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TATTTTAATAATGTAATT
Found at i:80413 original size:35 final size:35
Alignment explanation
Indices: 80367--80442 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
80357 AAAACAATCC
* *
80367 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
80402 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
80437 TCAATT
1 TCAATT
80443 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:80990 original size:128 final size:126
Alignment explanation
Indices: 80827--81084 Score: 408
Period size: 128 Copynumber: 2.0 Consensus size: 126
80817 TTCAGTCTTT
* * **
80827 ATTATTTATATAATCAATTTTGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGG
1 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
* *
80892 ATCTGACATGTGTTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
66 ATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
*
80953 ATTATTTATATGCTATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
1 ATTATTTATAT--AATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
* * *
81018 GGATCTGACATGTGTTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTA
64 GGATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
81081 ATTA
1 ATTA
81085 GAAGAAAATT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
126 11 0.09
128 109 0.91
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (126 bp):
ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
ATCTGACATGTGTTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTA
Found at i:81435 original size:28 final size:27
Alignment explanation
Indices: 81404--81466 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
81394 AGTTGATACA
*
81404 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
81432 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
81460 ATATTTT
1 ATATTTT
81467 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:81564 original size:16 final size:18
Alignment explanation
Indices: 81543--81576 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
81533 ATTTCTTATT
81543 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
81559 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
81577 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:85727 original size:16 final size:16
Alignment explanation
Indices: 85706--85752 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
85696 GCTTAGGTAA
85706 TTTTAAAAATTTTATT
1 TTTTAAAAATTTTATT
* *
85722 TTTTAAAAAATATAATT
1 TTTT-AAAAATTTTATT
85739 TTTT-AAAATTTTAT
1 TTTTAAAAATTTTAT
85753 AAAGACAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 8 0.31
16 4 0.15
17 14 0.54
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAAAATTTTATT
Found at i:92024 original size:60 final size:59
Alignment explanation
Indices: 91951--92117 Score: 180
Period size: 57 Copynumber: 2.8 Consensus size: 59
91941 ATTATAATTC
* * * * *
91951 TCATTTTAAATTAGTCCTTAAATTTTTTAATATTCCAATTTCATTCCTAAGCTATGACTT
1 TCATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCA-TCCCAAACTATGACTT
*
92011 TCATTTTAAATTAGTCCTTAAACTTTTGAACATTCCATTTTCATCCCAAACTATGAC--
1 TCATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCAAACTATGACTT
* * ** *
92068 TCACTATAAATT-GATCCCCAAACTTTTGAATC-TTTCAATTTCATCCCAAA
1 TCATTTTAAATTAG-TCCTTAAACTTTTGAA-CATTCCAATTTCATCCCAAA
92118 ATCATCCAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 40 0.43
58 1 0.01
59 12 0.13
60 39 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.42
Consensus pattern (59 bp):
TCATTTTAAATTAGTCCTTAAACTTTTGAACATTCCAATTTCATCCCAAACTATGACTT
Found at i:97276 original size:3 final size:3
Alignment explanation
Indices: 97261--97341 Score: 83
Period size: 3 Copynumber: 26.7 Consensus size: 3
97251 TCATTTCGTT
* ** *
97261 TTA TTA TTT TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
97309 TTA TTA TTA TTA ATA TTA TTAA ATA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT
97342 TAAAATAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.03
3 56 0.89
4 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:97687 original size:19 final size:21
Alignment explanation
Indices: 97665--97706 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
97655 AGCAACAGAG
*
97665 AACAGAGACAAGA-A-AAAAA
1 AACAGAAACAAGATACAAAAA
97684 AACAGAAACAAGATACAAAAA
1 AACAGAAACAAGATACAAAAA
97705 AA
1 AA
97707 AAATACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.02
Consensus pattern (21 bp):
AACAGAAACAAGATACAAAAA
Found at i:97689 original size:26 final size:25
Alignment explanation
Indices: 97658--97709 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
97648 AACGGACAGC
97658 AACAGAGAAC-AGAGACAAGAAAAAAA
1 AACAGA-AACAAGAGACAA-AAAAAAA
*
97684 AACAGAAACAAGATACAAAAAAAAA
1 AACAGAAACAAGAGACAAAAAAAAA
97709 A
1 A
97710 TACCAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.73, C:0.12, G:0.13, T:0.02
Consensus pattern (25 bp):
AACAGAAACAAGAGACAAAAAAAAA
Found at i:98552 original size:22 final size:21
Alignment explanation
Indices: 98522--98575 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
98512 TATTTTATTG
98522 TTATATATTTAAAATAATAATAA
1 TTAT-TATTT-AAATAATAATAA
* * *
98545 TTATTATTTTAATCATATTAA
1 TTATTATTTAAATAATAATAA
98566 TATATTATTT
1 T-TATTATTT
98576 GATTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.37
22 13 0.48
23 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATTATTTAAATAATAATAA
Found at i:103936 original size:17 final size:16
Alignment explanation
Indices: 103909--103941 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
103899 CTTATCCAAC
103909 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
103925 AAAGAGAAGAAGAAAAA
1 AAAGA-AAGAAGAAAAA
103942 GGAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:104760 original size:9 final size:9
Alignment explanation
Indices: 104748--104772 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
104738 TTTATTTGAT
104748 ATTCATTAA
1 ATTCATTAA
104757 ATTCATTAA
1 ATTCATTAA
104766 ATTCATT
1 ATTCATT
104773 GTTTATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (9 bp):
ATTCATTAA
Found at i:106215 original size:114 final size:115
Alignment explanation
Indices: 106015--106353 Score: 545
Period size: 114 Copynumber: 3.0 Consensus size: 115
106005 GTGCCATGTA
* *
106015 CTCATAGTAGAAATAAGAAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
106080 GTTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA-TTTG
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
* * *
106129 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
106194 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
*
106244 CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * * * *
106309 ATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA
106354 CTGCATGATC
Statistics
Matches: 207, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
114 104 0.50
115 103 0.50
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
Found at i:106307 original size:115 final size:114
Alignment explanation
Indices: 106015--106353 Score: 536
Period size: 115 Copynumber: 3.0 Consensus size: 114
106005 GTGCCATGTA
*
106015 CTCATAGTAGAAAT-AAGAAGACCCAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
1 CTCATAGTAGAAATAAAG-AGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
*
106079 GGTTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
65 GATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
* * * *
106129 CTCATGGTAGAAATAAGGAGGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
106194 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTTG
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA-TTTG
106244 CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * * * *
106309 ATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAA
106354 CTGCATGATC
Statistics
Matches: 206, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
114 101 0.49
115 105 0.51
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (114 bp):
CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACTCCAAAATCAATCATTGGATTTGAAAGATGAATTTG
Found at i:107534 original size:76 final size:75
Alignment explanation
Indices: 107451--107699 Score: 322
Period size: 75 Copynumber: 3.3 Consensus size: 75
107441 ATTAACAAGA
* * **
107451 AGCAAATGTTAGGGCATGCTGAAACCCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAA
1 AGCAAATGTTGGGGCATGCTGAAACCCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAA
* **
107516 TGTTTATATC
66 CGTTCGTATC
* *
107526 AGCAAAATGCTGGGGCATGCTGAAATCCCCTTTT-AATCAGAATAAAGAATGTTGATGTATTTTG
1 AGC-AAATGTTGGGGCATGCTGAAA-CCCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTG
107590 AACGTTCGTATC
64 AACGTTCGTATC
* * * * *
107602 AACAATTGATGGGGCATGCTGAAA-GCCTATTTCAATCAGAATCAAGAATATTGATGTATTTTGA
1 AGCAAATGTTGGGGCATGCTGAAACCCCT-TTTCAATCAGAATCAAGAATGTTGATGTATTTTGA
107666 ACGTTCGTATC
65 ACGTTCGTATC
*
107677 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
107700 GGCCCATATC
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
73 3 0.02
74 3 0.02
75 83 0.54
76 56 0.37
77 8 0.05
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAACCCCTTTTCAATCAGAATCAAGAATGTTGATGTATTTTGAA
CGTTCGTATC
Found at i:108675 original size:54 final size:54
Alignment explanation
Indices: 108574--108685 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
108564 CAATGATTGA
*** *
108574 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAT
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTAC
** * *
108628 GAACATCTGAGCAGAAGCCACAGGAAATGATGAATGCACTGTTAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTAC
108682 GAAC
1 GAAC
108686 CTGCTATTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGCACTGTCAAATGTTTTAC
Found at i:109794 original size:31 final size:31
Alignment explanation
Indices: 109759--109833 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
109749 CTTCAGTGCA
*
109759 TGATGTTTCCAAAAAGCCTTCGGGATCTTTT
1 TGATGTTTTCAAAAAGCCTTCGGGATCTTTT
109790 TGATGTTTTCAAAAAGCCTTCGGGATCTTTT
1 TGATGTTTTCAAAAAGCCTTCGGGATCTTTT
109821 TGATGTTTTCAAA
1 TGATGTTTTCAAA
109834 GCCTCAGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (31 bp):
TGATGTTTTCAAAAAGCCTTCGGGATCTTTT
Found at i:109919 original size:76 final size:76
Alignment explanation
Indices: 109790--110557 Score: 1329
Period size: 76 Copynumber: 10.1 Consensus size: 76
109780 GGGATCTTTT
* * *
109790 TGATGTTTTCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCTCAGGGTTATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
109855 CCTTCAGTGCA
66 CCTTCAGTGCA
*
109866 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
109931 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
109942 TGATGTTTCCAAAAAGCCTTCGAGATCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110007 CCTTCAGTGCA
66 CCTTCAGTGCA
*
110018 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110083 CCTTCAGTGCA
66 CCTTCAGTGCA
* *
110094 TGGTGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110159 CCTTCAGTGCA
66 CCTTCAGTGCA
* **
110170 TGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAAAGCCTCAGTATCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110235 CCTTCAGTGCA
66 CCTTCAGTGCA
*
110246 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110311 CCTTCAGTGCA
66 CCTTCAGTGCA
* * *
110322 TAATGTTTCCAATAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
110387 CCTTCAGTGCA
66 CCTTCAGTGCA
*
110398 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTCAGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
*
110463 CCTGCAGTGCA
66 CCTTCAGTGCA
* * * *
110474 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTCTCAAACCCTCAGGGTCATTTGTAAGA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
*
110539 CCTACAGTGCA
66 CCTTCAGTGCA
110550 TGATGTTT
1 TGATGTTT
110558 TCAATATTTC
Statistics
Matches: 658, Mismatches: 34, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 658 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTCAGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:110703 original size:3 final size:3
Alignment explanation
Indices: 110688--110770 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
110678 TCATTTCGTT
* ** *
110688 TTA TTA TTT TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
110734 TATA TTA TTA TTA ATA ATA TTA TTAA ATA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TT
110771 TAAAATAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
3 57 0.86
4 9 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:110743 original size:23 final size:25
Alignment explanation
Indices: 110698--110770 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 25
110688 TTATTATTTT
*
110698 TATTATTAAAATTATTATTATTATTAA
1 TATTATT-AAA-TATTATTATTAATAA
*
110725 TATTATATATATATTATTATTAATAA
1 TATTAT-TAAATATTATTATTAATAA
110751 TATTATTAAATATTATTATT
1 TATTATTAAATATTATTATT
110771 TAAAATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 13 0.31
26 20 0.48
27 8 0.19
28 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATTAAATATTATTATTAATAA
Found at i:110777 original size:15 final size:13
Alignment explanation
Indices: 110697--110770 Score: 73
Period size: 13 Copynumber: 5.6 Consensus size: 13
110687 TTTATTATTT
110697 TTATTATTAAAATTA
1 TTATTATT-AAA-TA
110712 TTATTATTATTAATA
1 TTATTATTA--AATA
*
110727 TTA-TA-TATATA
1 TTATTATTAAATA
110738 TTATTATT-AATA
1 TTATTATTAAATA
*
110750 ATATTATTAAATA
1 TTATTATTAAATA
110763 TTATTATT
1 TTATTATT
110771 TAAAATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.12
12 12 0.24
13 14 0.28
14 3 0.06
15 13 0.26
16 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTATTATTAAATA
Found at i:111117 original size:27 final size:26
Alignment explanation
Indices: 111087--111137 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
111077 AACGGACAGC
111087 AACAGAGAAC-AGAGACAAGAAAAAAAA
1 AACAGA-AACAAGAGACAA-AAAAAAAA
*
111114 AACAGAAACAAGATACAAAAAAAA
1 AACAGAAACAAGAGACAAAAAAAA
111138 TACCAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.73, C:0.12, G:0.14, T:0.02
Consensus pattern (26 bp):
AACAGAAACAAGAGACAAAAAAAAAA
Found at i:111119 original size:20 final size:22
Alignment explanation
Indices: 111094--111137 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
111084 AGCAACAGAG
*
111094 AACAGAGACAAGA-A-AAAAAA
1 AACAGAAACAAGATACAAAAAA
111114 AACAGAAACAAGATACAAAAAA
1 AACAGAAACAAGATACAAAAAA
111136 AA
1 AA
111138 TACCAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 1 0.05
22 8 0.38
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.02
Consensus pattern (22 bp):
AACAGAAACAAGATACAAAAAA
Found at i:116499 original size:6 final size:6
Alignment explanation
Indices: 116488--116526 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
116478 ACCACGCATC
116488 TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTT
1 TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTT
116527 TAAAGTGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTGAA
Found at i:128336 original size:14 final size:14
Alignment explanation
Indices: 128317--128344 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
128307 TTTGCGGTCC
128317 ATCTTGGGAGTTGA
1 ATCTTGGGAGTTGA
128331 ATCTTGGGAGTTGA
1 ATCTTGGGAGTTGA
128345 TGATAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (14 bp):
ATCTTGGGAGTTGA
Found at i:136376 original size:23 final size:23
Alignment explanation
Indices: 136323--136384 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
136313 TGTTATTATT
* * ** *
136323 TATGGTATATAATGTATATGTAT
1 TATGTTATATAATATATACATAC
*
136346 TATATTATATAATATATACATAC
1 TATGTTATATAATATATACATAC
*
136369 TATGTTATATACTATA
1 TATGTTATATAATATA
136385 ATTATATAGC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (23 bp):
TATGTTATATAATATATACATAC
Found at i:137168 original size:29 final size:29
Alignment explanation
Indices: 137131--137186 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
137121 GTTATTTAAT
137131 GAAAAGTGGTGGTGCTTTAATAATGGAAG
1 GAAAAGTGGTGGTGCTTTAATAATGGAAG
*
137160 GAAACGTGGTGGTGCTTTAATAATGGA
1 GAAAAGTGGTGGTGCTTTAATAATGGA
137187 TGAATCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (29 bp):
GAAAAGTGGTGGTGCTTTAATAATGGAAG
Found at i:139316 original size:19 final size:19
Alignment explanation
Indices: 139282--139326 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
139272 ATTTAGACAT
139282 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
139300 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
139319 TTTGCATT
1 TTTGCATT
139327 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:142814 original size:80 final size:80
Alignment explanation
Indices: 142681--143118 Score: 475
Period size: 84 Copynumber: 5.4 Consensus size: 80
142671 TAAACAAACT
*
142681 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGACTACGCTCA
142746 GCTCCAAGGCACATC
66 GCTCCAAGGCACATC
* * * * *
142761 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTACCTAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGACTACGCTCA
* *
142826 GCTCTGAGGGCACATC
66 GCTC-CAAGGCACATC
*
142842 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGACTACGCTCA
*
142907 GCTCCAAGGCATATC
66 GCTCCAAGGCACATC
** * * * * * *
142922 ATTTGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCT----ACCAAAGACCTTCGAGTTCGACTACG
*
142987 CTCAGCT-CAACGACACATC
62 CTCAGCTCCAA-GGCACATC
* * * * * * * *
143006 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAAGACCTTCGAGTTTGGCTACA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATC---TACC-AAAGACCTTCGAGTTCGACTACG
*
143071 CTCAGCT-CAACGACACATC
62 CTCAGCTCCAA-GGCACATC
* * * *
143090 ATTTGCAACATAGCTCAAGGCAAGAAGGG
1 ATTTGCAGCATAACTTAAGTCAAGAAGGG
143119 TTATATGTCA
Statistics
Matches: 304, Mismatches: 44, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
80 100 0.33
81 72 0.24
83 5 0.02
84 126 0.41
87 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (80 bp):
ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATC
Found at i:142950 original size:161 final size:161
Alignment explanation
Indices: 142681--143099 Score: 518
Period size: 161 Copynumber: 2.6 Consensus size: 161
142671 TAAACAAACT
142681 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* * * **
142746 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-ACCTAAGACCTTCG
66 GCTCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGCTATCTCACAAAAGACCTTCG
* * * *
142810 AGTTCGATTACACTCAGCTCTGAGGGCACATC
131 AGTTCGACTACACTCAGCTC-AACGACACATC
142842 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
* * * * *
142907 GCTCCAAGGCATATCATTTGCAATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCT
66 GCTCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGCTATCT--C-ACAAAAGACCT
* *
142972 TTGAGTTCGACTACGCTCAGCTCAACGACACATC
128 TCGAGTTCGACTACACTCAGCTCAACGACACATC
* * * * * * * *
143006 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTACCAAAAGACCTTCGAGTTTGGCTACA
1 ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTG---CC-AAAGACCTTCGAGTTCGACTACG
*
143071 CTCAGCT-CAACGACACATCATTTGCAACA
62 CTCAGCTCCAA-GGCACATCATTTGCAACA
143100 TAGCTCAAGG
Statistics
Matches: 222, Mismatches: 27, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
161 107 0.48
164 39 0.18
165 29 0.13
167 5 0.02
168 42 0.19
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (161 bp):
ATTTGCAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTGCAACACAACTTAAGTCGAGAAGGGCTATCTCACAAAAGACCTTCG
AGTTCGACTACACTCAGCTCAACGACACATC
Found at i:143754 original size:23 final size:23
Alignment explanation
Indices: 143701--143762 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
143691 TGTTATTATT
* * ** *
143701 TATGGTATATAATGTATATGTAT
1 TATGTTATATAATATATACATAC
*
143724 TATATTATATAATATATACATAC
1 TATGTTATATAATATATACATAC
*
143747 TATGTTATATACTATA
1 TATGTTATATAATATA
143763 ATTATATAGC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (23 bp):
TATGTTATATAATATATACATAC
Found at i:144545 original size:29 final size:29
Alignment explanation
Indices: 144508--144563 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
144498 GTTATTTAAT
144508 GAAAAGTGGTGGTGCTTTAATAATGGAAG
1 GAAAAGTGGTGGTGCTTTAATAATGGAAG
*
144537 GAAACGTGGTGGTGCTTTAATAATGGA
1 GAAAAGTGGTGGTGCTTTAATAATGGA
144564 TGAATCTGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.34, T:0.29
Consensus pattern (29 bp):
GAAAAGTGGTGGTGCTTTAATAATGGAAG
Found at i:145288 original size:20 final size:20
Alignment explanation
Indices: 145263--145334 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
145253 ATCATATTCT
145263 CTGGTAATCTTATATTCCCA
1 CTGGTAATCTTATATTCCCA
145283 CTGGTAATCTTATATTCCCA
1 CTGGTAATCTTATATTCCCA
*
145303 CTGGTAATCTTATATTCACA
1 CTGGTAATCTTATATTCCCA
**
145323 CTAATAATCTTA
1 CTGGTAATCTTA
145335 CATTTCGTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (20 bp):
CTGGTAATCTTATATTCCCA
Found at i:147108 original size:21 final size:21
Alignment explanation
Indices: 147069--147108 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
147059 TAAATATTAA
* *
147069 AAAATTTAAATTTTAAATTTT
1 AAAATGTAAACTTTAAATTTT
*
147090 AAAATGTAAACTTTTAATT
1 AAAATGTAAACTTTAAATT
147109 CATAAATTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
AAAATGTAAACTTTAAATTTT
Found at i:147955 original size:16 final size:15
Alignment explanation
Indices: 147934--147975 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
147924 TTATAAGGTG
147934 AAAATAATATTATTAT
1 AAAATAATATTATT-T
147950 AAAATAAATATTATTT
1 AAAAT-AATATTATTT
147966 AAAATAATAT
1 AAAATAATAT
147976 ATAACTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATAATATTATTT
Found at i:148198 original size:8 final size:8
Alignment explanation
Indices: 148187--148230 Score: 51
Period size: 7 Copynumber: 6.0 Consensus size: 8
148177 AATAATTCTA
148187 TAAATATT
1 TAAATATT
148195 TAAATATT
1 TAAATATT
148203 T-AATATT
1 TAAATATT
148210 T-AATA-T
1 TAAATATT
148216 TAAA-ATT
1 TAAATATT
*
148223 TAATTATT
1 TAAATATT
148231 CAAAAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 3 0.09
7 17 0.53
8 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TAAATATT
Found at i:157256 original size:24 final size:24
Alignment explanation
Indices: 157229--157293 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
157219 TATATATATA
157229 TTATATTTAATATT-TTAAGAATTT
1 TTATATTTAATATTATTAA-AATTT
*
157253 TTAT-TTTTATATTATTAAAATTT
1 TTATATTTAATATTATTAAAATTT
*
157276 AT-TATTT-A-ATTATTAAAA
1 TTATATTTAATATTATTAAAA
157294 AATAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 10 0.27
22 2 0.05
23 17 0.46
24 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATATTTAATATTATTAAAATTT
Found at i:157278 original size:21 final size:21
Alignment explanation
Indices: 157252--157293 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
157242 TTTAAGAATT
157252 TTTATT-TTTATATTATTAAAA
1 TTTATTATTTA-ATTATTAAAA
157273 TTTATTATTTAATTATTAAAA
1 TTTATTATTTAATTATTAAAA
157294 AATAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTATTTAATTATTAAAA
Found at i:157312 original size:14 final size:15
Alignment explanation
Indices: 157283--157318 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
157273 TTTATTATTT
157283 AATTATTAAAAAATA
1 AATTATTAAAAAATA
*
157298 AATTATT-ATAAATA
1 AATTATTAAAAAATA
157312 AATTATT
1 AATTATT
157319 TTAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTATTAAAAAATA
Found at i:159989 original size:82 final size:81
Alignment explanation
Indices: 159837--160077 Score: 279
Period size: 82 Copynumber: 2.9 Consensus size: 81
159827 AAAATGCTGT
* * *
159837 AATAGGGTTCACCTATAGTGGCATTTTTTCAATAAA-CACGACAATAAATTAGTACTTTAGCGGT
1 AATAGGGTTCACCTATAGTGG-TTTTTTTCAATAAAGC-CG-CAACAAATTAGTACTTTAGCGGC
* *
159901 GCTTTTATACAAACGCCGC
63 GTTTTTATACAAACACCGC
159920 AATAGGGTTCACCTATAGTGGTTTTTTTCAATAAATGCCGCAACAAATTAGTACTTTAGCGGCGT
1 AATAGGGTTCACCTATAGTGGTTTTTTTCAATAAA-GCCGCAACAAATTAGTACTTTAGCGGCGT
* * *
159985 TTTTATATAATCACCGT
65 TTTTATACAAACACCGC
* * ** * *
160002 AATAGGATTCACCTATAGTGATTTTTTCTCACGAACGCCGCAAC-AATGTAGTACTTTAGCAGCG
1 AATAGGGTTCACCTATAGTGGTTTTTT-TCAATAAAGCCGCAACAAAT-TAGTACTTTAGCGGCG
*
160066 TTTTTGTACAAA
64 TTTTTATACAAA
160078 TGCAGCTAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
81 3 0.02
82 105 0.77
83 28 0.20
84 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (81 bp):
AATAGGGTTCACCTATAGTGGTTTTTTTCAATAAAGCCGCAACAAATTAGTACTTTAGCGGCGTT
TTTATACAAACACCGC
Found at i:166567 original size:42 final size:42
Alignment explanation
Indices: 166506--166585 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
166496 GTTAGGCTTC
* *
166506 ACCGTTGATTTAACGGAAACAATGATATAGCATAATATTTTA
1 ACCGTTGACTTAACAGAAACAATGATATAGCATAATATTTTA
* * *
166548 ACCGTTGACTTAATAGAAACAGTGATATAGTATAATAT
1 ACCGTTGACTTAACAGAAACAATGATATAGCATAATAT
166586 AATGACACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (42 bp):
ACCGTTGACTTAACAGAAACAATGATATAGCATAATATTTTA
Found at i:175007 original size:4 final size:4
Alignment explanation
Indices: 174998--175040 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
174988 CATGATACAG
* *
174998 ATAC ATAC ATGC ATAC AAAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
175041 GCAAAGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:178612 original size:2 final size:2
Alignment explanation
Indices: 178605--178634 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
178595 TCATATAGCT
178605 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
178635 GGGTAAACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:178620 original size:13 final size:13
Alignment explanation
Indices: 178590--178634 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
178580 TCATCCCTAT
**
178590 TTATATCATATAGC
1 TTATAT-ATATATA
178604 TTATATATATATA
1 TTATATATATATA
178617 TTATATATATATA
1 TTATATATATATA
178630 -TATAT
1 TTATAT
178635 GGGTAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 5 0.17
13 18 0.62
14 6 0.21
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (13 bp):
TTATATATATATA
Done.