Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1956
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: 98760
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Found at i:843 original size:13 final size:13
Alignment explanation
Indices: 825--850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
815 ACATTTTGGG
825 ATGTATCGATACA
1 ATGTATCGATACA
838 ATGTATCGATACA
1 ATGTATCGATACA
851 TCTTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:845 original size:33 final size:32
Alignment explanation
Indices: 803--870 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
793 CGTTACAAGC
*
803 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATCTTGGG-TGTATCGATA
*
836 CAATGTATCGATACATCTTGTGTGTATCGATA
1 CAATGTATCGATACATCTTGGGTGTATCGATA
868 CAA
1 CAA
871 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGGGTGTATCGATA
Found at i:1966 original size:19 final size:21
Alignment explanation
Indices: 1918--1972 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1908 AATTTCAATA
*
1918 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
1939 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
1959 -TTTGTATCGATACA
1 ATTTGTATCGATACA
1973 ATGTATTGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:2126 original size:55 final size:56
Alignment explanation
Indices: 2025--2342 Score: 302
Period size: 55 Copynumber: 5.6 Consensus size: 56
2015 ATTATTCCAT
* * *
2025 GTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACGA
* * * **
2080 GTTGGTGGCATTTTCCAGTCCTCAAAAAGTAGGATGCCTCTT-AAAGCCCACACCC
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACGA
* * * *
2135 GTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGACG-CTTTTCAAAGCCCGCACAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACGA
* * * *
2190 GTTGGTGGCATTTTCTAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGCAAAGCCCATACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC---CTC-TT-CAAAGCCCACACGA
** * * * *
2251 GTTGGTGGCACCTTCCAGTCCTCAATGAGCAGGACGCTTTTCCTTTTCAAAGCCCATATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-----CCTCTTCAAAGCCCACACGA
*
2312 GTTGGTGGCACTTTT-TAGTCCTCAAAGAGCA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCA
2343 AGATGCACTT
Statistics
Matches: 213, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
54 4 0.02
55 118 0.55
56 2 0.01
59 2 0.01
60 2 0.01
61 78 0.37
62 4 0.02
63 2 0.01
66 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (56 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTCTTCAAAGCCCACACGA
Found at i:2224 original size:110 final size:113
Alignment explanation
Indices: 2025--2292 Score: 344
Period size: 110 Copynumber: 2.4 Consensus size: 113
2015 ATTATTCCAT
* * **
2025 GTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
2090 TTTTCCAGTCCTCAAAAAGTAGGATGC-CTC-TT-AAAGCCCACACCC
66 TTTTCCAGTCCTCAAAAAGCAGGATGCTCTCTTTCAAAGCCCACACCA
* * *
2135 GTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
* ** * *
2200 TTTTCTAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGCAAAGCCCATACGA
66 TTTTCCAGTCCTCAAAAAGCAGGATGC--TCTCTTT-CAAAGCCCACACCA
* *
2251 GTTGGTGGCACCTTCCAGTCCTCAATGAGCAGGACGCTTTTC
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTTC
2293 CTTTTCAAAG
Statistics
Matches: 134, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
110 81 0.60
113 3 0.02
114 2 0.01
116 48 0.36
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (113 bp):
GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACAAGTTGGTGGCA
TTTTCCAGTCCTCAAAAAGCAGGATGCTCTCTTTCAAAGCCCACACCA
Found at i:3253 original size:19 final size:21
Alignment explanation
Indices: 3205--3259 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3195 AATTTCAATA
*
3205 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
3226 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
*
3246 -TTTGTATCAATACA
1 ATTTGTATCGATACA
3260 ATGTATCGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 13 0.46
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:3329 original size:13 final size:13
Alignment explanation
Indices: 3311--3336 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3301 CATTATTCCA
3311 TGTATCGATACAT
1 TGTATCGATACAT
3324 TGTATCGATACAT
1 TGTATCGATACAT
3337 GGAACTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5757 original size:52 final size:52
Alignment explanation
Indices: 5690--5826 Score: 181
Period size: 52 Copynumber: 2.6 Consensus size: 52
5680 TTAAGTTTCT
*
5690 CAATTGTT-CATAATCGGGGATACTCCAACCTCGATTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACAC
*
5741 CAATTTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCT-CGATTTTATTTCCAAAAACAC
* * *
5794 CAATTTTTCACAATCGAGGATACTCCAACCTCG
1 CAATTTTCCATAATCGGGGATACTCCAACCTCG
5827 TTATTTCATC
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
50 2 0.03
51 8 0.11
52 48 0.64
53 17 0.23
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCTCGATTTTATTTCCAAAAACAC
Found at i:8110 original size:4 final size:4
Alignment explanation
Indices: 8101--8127 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8091 TTTTGAGGTG
8101 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
8128 GTCTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13387 original size:13 final size:13
Alignment explanation
Indices: 13369--13393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13359 CATAAAATGT
13369 TGTATCGATACAA
1 TGTATCGATACAA
13382 TGTATCGATACA
1 TGTATCGATACA
13394 TATTTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:13474 original size:13 final size:13
Alignment explanation
Indices: 13456--13480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13446 ATTACTCAAA
13456 TGTATCGATACAT
1 TGTATCGATACAT
13469 TGTATCGATACA
1 TGTATCGATACA
13481 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:13582 original size:52 final size:52
Alignment explanation
Indices: 13489--13616 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
13479 CACTGATCTT
*
13489 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
13540 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
13592 TGTATCGATACATACAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
13617 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:20489 original size:1 final size:1
Alignment explanation
Indices: 20483--20531 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
20473 GAGTTCCCTT
* * * * *
20483 AAAAAAATAAACACAAAAAAACAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20532 GTGCAAAGGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.06, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:20863 original size:1 final size:1
Alignment explanation
Indices: 20857--20888 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
20847 TAATCTTCAC
20857 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20889 CCCCTTTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:21932 original size:62 final size:62
Alignment explanation
Indices: 21831--22344 Score: 802
Period size: 62 Copynumber: 8.3 Consensus size: 62
21821 CTTCTCAAAA
* *
21831 TCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
21894 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
21956 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
22018 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
22080 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
22142 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
* *
22204 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
* * * * * * *
22266 GCCACAACTCCGTGGCACCTTTT-TTTCAAAGCCCACAACTCCGTGGCACCTTTT--TTTCAAAG
1 TCCACAACTCAGTGGCA--TTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTT-AAAG
* *
22328 CCCACAACTCCGTGGCA
1 TCCACAACTCAGTGGCA
22345 CCTTTTTTTT
Statistics
Matches: 429, Mismatches: 18, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
61 4 0.01
62 379 0.88
63 42 0.10
64 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (62 bp):
TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
Found at i:22345 original size:62 final size:61
Alignment explanation
Indices: 21831--22412 Score: 700
Period size: 62 Copynumber: 9.3 Consensus size: 61
21821 CTTCTCAAAA
* * * *
21831 TCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTT-TCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* *
21894 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* *
21956 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* *
22018 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
*
22080 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* *
22142 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* * *
22204 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTCAAAG
1 TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTT-CTTTAAAG
* * * * * *
22266 GCCACAACTCCGTGGCACCTTTT-TTTCAAAGCCCACAACTCCGTGGCACCTTTT-TTTCAAAG
1 TCCACAACTCAGTGGCA--TTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTT-AAAG
* * * * * * * *
22328 CCCACAACTCCGTGGCACCTTTTTTTTAAAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTA
1 TCCACAACTCAGTGGCA--TTTTGTTT-CAAAGTCCACGACTCAGTGGCA-TC-TTTTC--TTTA
22393 AAG
59 AAG
* *
22396 CCCACAACTCTGTGGCA
1 TCCACAACTCAGTGGCA
22413 CCCTTTTTTC
Statistics
Matches: 484, Mismatches: 25, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
61 2 0.00
62 381 0.79
63 49 0.10
64 24 0.05
65 1 0.00
66 4 0.01
68 20 0.04
69 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.31
Consensus pattern (61 bp):
TCCACAACTCAGTGGCATTTTGTTTCAAAGTCCACGACTCAGTGGCATCTTTTCTTTAAAG
Found at i:22473 original size:70 final size:70
Alignment explanation
Indices: 22228--22682 Score: 427
Period size: 70 Copynumber: 6.4 Consensus size: 70
22218 GCATTTTGTC
* * * * * * *
22228 TCAAAGTCCACGACTCAGTGGCATC-TTTTCCTTCAAAGGCCACAACTCCGTGGCA-CC---TTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTTT
22288 --TTT
66 CCTTT
*
22291 TCAAAGCCCACAACTCCGTGGCACC-TTTT-TTTCAAAGCCCACAACTCCGTGGCA-CC-TTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTTT
22352 --TTT
66 CCTTT
** * *
22355 AAAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTT
1 TCAAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACCCTTTT
22420 TTCCTTT
64 TTCCTTT
*
22427 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACCTACGACT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-C--C--C-
22492 TTGTGGCACTCTCTTTCCCTTT
60 ---T-----T-T-TTT-CCTTT
* * *
22514 TTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACCCTTTTT
*
22579 CCCTTT
65 TCCTTT
* * *
22585 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTTT
22650 CCTTT
66 CCTTT
* *
22655 T--AAGTCCACAACTCCGTGGCATCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTTTT
22683 TTCCTTCCTA
Statistics
Matches: 339, Mismatches: 25, Indels: 51
0.82 0.06 0.12
Matches are distributed among these distances:
62 25 0.07
63 25 0.07
64 27 0.08
65 1 0.00
66 4 0.01
68 47 0.14
69 2 0.01
70 70 0.21
71 41 0.12
72 26 0.08
73 2 0.01
74 1 0.00
75 1 0.00
79 2 0.01
83 1 0.00
84 1 0.00
85 1 0.00
86 3 0.01
87 35 0.10
88 24 0.07
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (70 bp):
TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCCTTTTTT
CCTTT
Found at i:22553 original size:34 final size:34
Alignment explanation
Indices: 22494--22701 Score: 249
Period size: 35 Copynumber: 5.9 Consensus size: 34
22484 CTACGACTTT
*
22494 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCAC-CT-TTTTCC-TTTTAAAGCCCACAACTCC
*
22531 GTGGCACCTTTTTCCGTTTAAAGCCCACAACTCC
1 GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
22565 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCC
*
22602 GTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCC
1 GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
*
22635 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCAC-CTTTTT-CCTTTTAAAGCCCACAACTCC
* *
22670 GTGGCATCTTTTTTTCCTTCCTAAAGCCCACA
1 GTGGCA-C-CTTTTTCCTT-TTAAAGCCCACA
22702 CAAGTCGGTG
Statistics
Matches: 153, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
33 21 0.14
34 30 0.20
35 46 0.30
36 20 0.13
37 36 0.24
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (34 bp):
GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
Found at i:22683 original size:35 final size:35
Alignment explanation
Indices: 22494--22701 Score: 271
Period size: 37 Copynumber: 5.9 Consensus size: 35
22484 CTACGACTTT
*
22494 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCACT-TTTTTCCC-TTTTAAAGCCCACAACTCC
* *
22531 GTGGCACCTTTTT-CCGTTTAAAGCCCACAACTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
22565 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACT-TTTTTCCCTTTT-AAAGCCCACAACTCC
22602 GTGGCACTTTTTT--CTTTTAAAGCCCACAACTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
*
22635 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCACT-TTTTTCCCTTTTAAAGCCCACAACTCC
* *
22670 GTGGCATCTTTTTTTCCTTCCTAAAGCCCACA
1 GTGGCA-CTTTTTTCCCTT-TTAAAGCCCACA
22702 CAAGTCGGTG
Statistics
Matches: 153, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
33 23 0.15
34 35 0.23
35 35 0.23
36 22 0.14
37 38 0.25
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (35 bp):
GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
Found at i:22729 original size:33 final size:34
Alignment explanation
Indices: 22686--22750 Score: 123
Period size: 33 Copynumber: 1.9 Consensus size: 34
22676 TCTTTTTTTC
22686 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
22720 CTTCC-AAAGCCCACACAAGTCGGTGGCAACC
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
22751 CCTCTAAGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.28, C:0.37, G:0.18, T:0.17
Consensus pattern (34 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:22729 original size:105 final size:102
Alignment explanation
Indices: 22516--22734 Score: 255
Period size: 105 Copynumber: 2.1 Consensus size: 102
22506 TTCCCTTTTT
*
22516 AAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
* * **
22581 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
66 CTTCTCAAAGCCCACAACTCCGTGGCAC--TCTTCTTCC
* *
22620 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTC-TTTTT
* * *
22684 TCCTTC-CTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCC
64 CCCTTCTC-AAAG-CC-CACAACTCCGTGGC-ACTCTTCTTCC
22725 AAAGCCCACA
1 AAAGCCCACA
22735 CAAGTCGGTG
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
104 25 0.25
105 58 0.59
106 2 0.02
107 12 0.12
108 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
CTTCTCAAAGCCCACAACTCCGTGGCACTCTTCTTCC
Found at i:22873 original size:49 final size:49
Alignment explanation
Indices: 22762--23831 Score: 1278
Period size: 49 Copynumber: 21.7 Consensus size: 49
22752 CTCTAAGCCA
22762 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * *
22814 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
22863 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * *
22915 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
22964 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * * *
23016 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
23065 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * *
23117 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
23166 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTCAA-TCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTT-AAGTCC
* *
23218 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23267 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
23310 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * *
23362 AATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * *
23411 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCCTCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23460 AATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * *
23509 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * *
23558 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * * *
23601 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTGCATCTTGAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23650 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23693 AATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCC
* ** * *
23745 AATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--C-C--T-TCATCTTTAAGTCC
* * * *
23800 AATATCGTTGGCCATGAATCAACATATTGGCA
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA
23832 TCTTTATCAC
Statistics
Matches: 881, Mismatches: 94, Indels: 83
0.83 0.09 0.08
Matches are distributed among these distances:
43 116 0.13
45 3 0.00
47 1 0.00
48 2 0.00
49 419 0.48
50 14 0.02
51 8 0.01
52 277 0.31
53 3 0.00
54 1 0.00
55 36 0.04
56 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
Found at i:22930 original size:101 final size:101
Alignment explanation
Indices: 22762--23831 Score: 1344
Period size: 101 Copynumber: 10.8 Consensus size: 101
22752 CTCTAAGCCA
* *
22762 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* * *
22827 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
22863 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* * *
22928 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
22964 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* * * *
23029 TTGACTCAGCACATTGGCACCTTCACCTTTAAGCCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23065 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* * *
23130 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23166 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTCAA-TCCAATATCGCTGGC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTT-AAGTCCAATATAGCTGGC
*
23230 CTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCC
65 CTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
*
23267 AATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
23323 TTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCC
66 TTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCC
* * * *
23362 AATGTAGCTAGCCTTGACTCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATCGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* *
23424 TTGAATCAGCATATTGGCATCTTCCTCTTTAAGTCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* *
23460 AATATAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATCGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* *
23522 TTGAATCAGCATATTGGCATCTTCATCTTGAAGTCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
* * *
23558 AATGTAGCTGGCCTTGACTCAGCACATTGGCA-------C--CTTTAAGTCCAATATCGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* * *
23614 TTGAATCAGCATATTGGCATCTGCATCTTGAAGTCC
66 TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
*
23650 AATGTAGCTGGCCTTGAATCAGCACATTGGCA-------C--CTTTAAGTCCAATATAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
* *
23706 TTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
66 TTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCC
* * * * * *
23745 AATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCCAATATCGTTG
1 AATATAGCTGGCCTTGAATCAGCACATTGGCA-CCT-TTTC-CATCTTTAAGTCCAATATAGCTG
* *
23810 GCCATGAATCAACATATTGGCA
63 GCCTTGAATCAGCATATTGGCA
23832 TCTTTATCAC
Statistics
Matches: 906, Mismatches: 37, Indels: 46
0.92 0.04 0.05
Matches are distributed among these distances:
91 2 0.00
92 170 0.19
94 5 0.01
95 84 0.09
98 137 0.15
99 3 0.00
101 465 0.51
102 2 0.00
105 1 0.00
107 37 0.04
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (101 bp):
AATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTTCCATCTTTAAGTCCAATATAGCTGGCC
TTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
Found at i:23643 original size:92 final size:92
Alignment explanation
Indices: 23499--23769 Score: 452
Period size: 92 Copynumber: 2.9 Consensus size: 92
23489 GCACCTTCAT
*
23499 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTCCATCTTGAAGTCCAATGTA
*
23564 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
23591 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTGCATCTTGAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTCCATCTTGAAGTCCAATGTA
23656 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
23683 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CA-TCTCCATCTTGAAGTCCAAT
23748 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
23770 GTTGACATCC
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
92 129 0.76
94 2 0.01
95 38 0.22
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTCCATCTTGAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:23818 original size:55 final size:55
Alignment explanation
Indices: 23683--24066 Score: 264
Period size: 67 Copynumber: 6.7 Consensus size: 55
23673 ACATTGGCAC
* *
23683 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CAT-TTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTCTTTCTCAT
* * **
23735 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTCTTTCTCAT
* * * * *
23790 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTCTT-TC-TCAT
* *
23854 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA---TC--T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTCTTTCTCAT
* * * *
23906 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTCTTTCTCAT
* * * * * * *
23961 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C---TCT-TTC-TC
24026 AT
54 AT
*
24028 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
24067 GCACCTTCAT
Statistics
Matches: 256, Mismatches: 43, Indels: 52
0.73 0.12 0.15
Matches are distributed among these distances:
49 36 0.14
52 43 0.17
53 2 0.01
54 6 0.02
55 65 0.25
56 2 0.01
57 4 0.02
58 2 0.01
61 7 0.03
62 6 0.02
63 2 0.01
64 6 0.02
65 2 0.01
66 4 0.02
67 69 0.27
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTCTTTCTCAT
Found at i:23926 original size:49 final size:49
Alignment explanation
Indices: 23848--23949 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
23838 TCACTCTTCT
* * *
23848 CATCATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGA
* * * *
23897 CATCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATGTTGA
1 CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGA
23946 CATC
1 CATC
23950 CTTTTTCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (49 bp):
CATCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGA
Found at i:23973 original size:171 final size:171
Alignment explanation
Indices: 23683--24077 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
23673 ACATTGGCAC
*
23683 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
23748 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCCAATATCGTTGGCC
23813 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
23857 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
* * *
23922 GCTGGCCTTGAATCAGCATGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* *
23987 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
24028 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
24078 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 167 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTCTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:24844 original size:33 final size:33
Alignment explanation
Indices: 24807--24873 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
24797 TTCAACGATC
24807 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
24840 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
24873 T
1 T
24874 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:24845 original size:13 final size:13
Alignment explanation
Indices: 24827--24851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24817 CATAAAATGT
24827 TGTATCGATACAA
1 TGTATCGATACAA
24840 TGTATCGATACA
1 TGTATCGATACA
24852 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:24932 original size:13 final size:13
Alignment explanation
Indices: 24914--24938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24904 ATTACTCAAA
24914 TGTATCGATACAT
1 TGTATCGATACAT
24927 TGTATCGATACA
1 TGTATCGATACA
24939 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25040 original size:52 final size:52
Alignment explanation
Indices: 24947--25074 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
24937 CACTGATCTT
*
24947 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
24998 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
25050 TGTATCGATACATACAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
25075 TCATATTTCG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:28737 original size:13 final size:13
Alignment explanation
Indices: 28719--28743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28709 CATAAAGTGT
28719 TGTATCGATACAA
1 TGTATCGATACAA
28732 TGTATCGATACA
1 TGTATCGATACA
28744 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:28759 original size:32 final size:33
Alignment explanation
Indices: 28699--28764 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
28689 TTCAACGATT
28699 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
28732 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
28764 T
1 T
28765 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:28823 original size:13 final size:13
Alignment explanation
Indices: 28805--28829 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28795 ATTACTCAAA
28805 TGTATCGATACAT
1 TGTATCGATACAT
28818 TGTATCGATACA
1 TGTATCGATACA
28830 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:28894 original size:52 final size:52
Alignment explanation
Indices: 28838--28966 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
28828 CACTGATCTT
*
28838 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
28890 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
28942 TGTATCGATACATGAAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
28967 TCATATTTTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:37211 original size:9 final size:8
Alignment explanation
Indices: 37193--37248 Score: 71
Period size: 8 Copynumber: 7.0 Consensus size: 8
37183 TTTTTTTTGT
37193 CAAAAAAA
1 CAAAAAAA
37201 CAAAAACAA
1 CAAAAA-AA
37210 CAAAAAAA
1 CAAAAAAA
37218 C-AAAAAA
1 CAAAAAAA
37225 C-AAAAAA
1 CAAAAAAA
37232 CAAAACAAA
1 CAAAA-AAA
*
37241 GAAAAAAA
1 CAAAAAAA
37249 AGAGAATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 14 0.32
8 15 0.34
9 15 0.34
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:37217 original size:18 final size:16
Alignment explanation
Indices: 37194--37247 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 16
37184 TTTTTTTGTC
37194 AAAAAAACAAAAACAA
1 AAAAAAACAAAAACAA
37210 CAAAAAAAC-AAAA-AA
1 -AAAAAAACAAAAACAA
*
37225 CAAAAAAC-AAAACAA
1 AAAAAAACAAAAACAA
37240 AGAAAAAA
1 A-AAAAAA
37248 AAGAGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 11 0.33
15 4 0.12
16 10 0.30
17 8 0.24
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAACAA
Found at i:37222 original size:7 final size:7
Alignment explanation
Indices: 37195--37236 Score: 57
Period size: 7 Copynumber: 5.6 Consensus size: 7
37185 TTTTTTGTCA
37195 AAAAAAC
1 AAAAAAC
37202 AAAAACAAC
1 -AAAA-AAC
37211 AAAAAAAC
1 -AAAAAAC
37219 AAAAAAC
1 AAAAAAC
37226 AAAAAAC
1 AAAAAAC
37233 AAAA
1 AAAA
37237 CAAAGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 18 0.55
8 7 0.21
9 8 0.24
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:37226 original size:24 final size:23
Alignment explanation
Indices: 37195--37247 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
37185 TTTTTTGTCA
37195 AAAAAACAAAAACAACAAAA-AAAC
1 AAAAAAC-AAAA-AACAAAACAAAC
*
37219 AAAAAACAAAAAACAAAACAAAG
1 AAAAAACAAAAAACAAAACAAAC
37242 AAAAAA
1 AAAAAA
37248 AAGAGAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 7 0.26
23 13 0.48
24 7 0.26
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAACAAAAAACAAAACAAAC
Found at i:37249 original size:18 final size:17
Alignment explanation
Indices: 37194--37249 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
37184 TTTTTTTGTC
*
37194 AAAAAAACAAAAACAAC
1 AAAAAAACAAAAACAAA
37211 AAAAAAACAAAAAACAAA
1 AAAAAAAC-AAAAACAAA
*
37229 AAACAAAACAAAGA-AAA
1 AAA-AAAACAAAAACAAA
37246 AAAA
1 AAAA
37250 GAGAATAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 14 0.40
18 15 0.43
19 5 0.14
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAAACAAA
Found at i:38300 original size:62 final size:62
Alignment explanation
Indices: 38204--38407 Score: 273
Period size: 62 Copynumber: 3.4 Consensus size: 62
38194 CTTCTCCTTC
* * *
38204 CACTTTTC-AGTCCTCAAGGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
38265 CACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCTTTCAAAGCACACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
38327 CA-TTTTCCAGTCCTCAAAGAGCAGGACG-C---T--TTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
38382 CAC-TTCCTAGTCCTCAAAGAGCAGGA
1 CACTTTTCTAGTCCTCAAAGAGCAGGA
38408 TCCTCTCTCC
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
55 46 0.36
57 1 0.01
60 1 0.01
61 32 0.25
62 49 0.38
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (62 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:38372 original size:55 final size:57
Alignment explanation
Indices: 38240--38407 Score: 225
Period size: 55 Copynumber: 2.9 Consensus size: 57
38230 TGCCTTTTCC
* *
38240 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCC-TT
*
38299 TCCTTTCAAAGCACACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-C-T
1 T--TTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTT
*
38357 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGA
38408 TCCTCTCTCC
Statistics
Matches: 100, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
54 4 0.04
55 40 0.40
56 3 0.03
58 2 0.02
59 1 0.01
60 1 0.01
61 27 0.27
62 22 0.22
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (57 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTT
Found at i:38604 original size:55 final size:54
Alignment explanation
Indices: 38431--38963 Score: 386
Period size: 55 Copynumber: 9.4 Consensus size: 54
38421 CGCCTTTTTA
* * * * * *
38431 TCCTTAAAGAGTAGGATGCCTTTAAAAGACCACGCAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC-AG
* * * *
38487 TCCTCAGAGAGAAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCTATTTCCAG
1 TCCTCAAAGAGCAGGATG-C---T--TTTCAAAGCCCACACAAGTTGGTGGC-ATTTTCAG
* * * * *
38548 TCCTCAAAGAGCAGGGTGCTTTTCAAAGCTCACATAAGTTGGGGGCACCTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* **
38603 TCCACAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 TCCTCAAAGAGCAGGATG-CTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* * * * *
38658 TCCTCAAAGAGTAAGATGCCTTTCAAAGCCCACACGAGTTGGAGGCATTTTTCAG
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* * * * * *
38713 TCCTTAAAAAGCAAGACGCCTCTT-AAAGCCCACACCAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGATG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAG
* * * *
38768 TACTCAAAGAGCAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAA
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAG
* * * * * *
38823 TCCTCAAAGCGCTGGATGCTTTCTCTTTGCAAAGCCCGCACGAGTTGGTGGCACCTTCCAG
1 TCCTCAAAGAGCAGGATG----CT-TTT-CAAAGCCCACACAAGTTGGTGGCA-TTTTCAG
* * ** *
38884 TCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGA------TGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAG
38945 TCCTCAAAGAGCAGGATGC
1 TCCTCAAAGAGCAGGATGC
38964 ACTTTATTTT
Statistics
Matches: 381, Mismatches: 70, Indels: 53
0.76 0.14 0.11
Matches are distributed among these distances:
54 13 0.03
55 206 0.54
56 22 0.06
57 2 0.01
59 2 0.01
60 4 0.01
61 96 0.25
62 32 0.08
63 3 0.01
67 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (54 bp):
TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAG
Found at i:38618 original size:211 final size:211
Alignment explanation
Indices: 38238--38814 Score: 598
Period size: 211 Copynumber: 2.7 Consensus size: 211
38228 GATGCCTTTT
* * **
38238 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
1 CCTTTAAAAGACCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGAAGGACGCCTTTTCCT
*
38303 TTCAAAGCACACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTTAAAGCCC
66 TTCAAAGCACACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
* *
38368 ACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATCCTCTCTCCTTTCGCCTTTTTATC
131 ACACAAGTTGGGGGCACTTCCTAGTCCACAAAGAGCAGGATCCTCTCTCCTTTCGCCTTTTTATC
38433 CTTAAAGAGTAGGATG
196 CTTAAAGAGTAGGATG
* *
38449 CCTTTAAAAGACCACGCAAGTTGGTGGCACTTTTCTAGTCCTCAGAGAGAAGGACGCCTTTTCCT
1 CCTTTAAAAGACCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGAAGGACGCCTTTTCCT
* ** *
38514 TTCAAAGCCCACACAAGTTGGTGGC-TATTTCCAGTCCTCAAAGAGCAGGGTGCTTTTCAAAGCT
66 TTCAAAGCACACACAAGTTGGTGGCAT-TTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCC
* * * *
38578 CACATAAGTTGGGGGCACCTTTC-AGTCCACAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGT
130 CACACAAGTTGGGGGCA-CTTCCTAGTCCACAAAGAGCAGGAT-CC---T----CTCTC-C---T
* *** * *
38642 TGGTGGCACTTCCCAGTCCTCAAAGAGTAAGATG
182 T--TCGC-CTTTTTA-TCCTTAAAGAGTAGGATG
* * * * * * *
38676 CCTTTCAAAGCCCACACGAGTTGGAGGCATTTTTC-AGTCCTTAAAAAGCAA-GACGCC---T-C
1 CCTTTAAAAGACCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAG-AAGGACGCCTTTTCC
* * *
38735 -TT-AAAGCCCACACCAGTTGGTGGCATTTTCCAGTACTCAAAGAGCAGGACGCTTTTCAAAGCC
65 TTTCAAAGCACACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCC
* *
38798 CGCACAAGTTGGTGGCA
130 CACACAAGTTGGGGGCA
38815 TTTTCCAATC
Statistics
Matches: 306, Mismatches: 40, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
210 1 0.00
211 149 0.49
212 6 0.02
215 1 0.00
219 3 0.01
220 69 0.23
221 3 0.01
222 1 0.00
223 3 0.01
225 3 0.01
226 20 0.07
227 47 0.15
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (211 bp):
CCTTTAAAAGACCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGAAGGACGCCTTTTCCT
TTCAAAGCACACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCC
ACACAAGTTGGGGGCACTTCCTAGTCCACAAAGAGCAGGATCCTCTCTCCTTTCGCCTTTTTATC
CTTAAAGAGTAGGATG
Found at i:38639 original size:110 final size:110
Alignment explanation
Indices: 38431--38968 Score: 477
Period size: 110 Copynumber: 4.7 Consensus size: 110
38421 CGCCTTTTTA
* * * * * * *
38431 TCCTTAAAGAGTAGGATGCCTTTAAAAGACCACGCAAGTTGGTGGCACTTTTCTAGTCCTCAGAG
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAG
* *
38496 AGAAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCTA-TTTCCAG
65 AGCAGGATGCC---T--TTT-AAAGCCCACACAAGTTGGTGGC-ACTTTCCAG
* * * * * *
38548 TCCTCAAAGAGCAGGGTGCTTTTCAAAGCTCACATAAGTTGGGGGCACCTTTCAGTCCACAAAGA
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
*
38613 GCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAG
66 GCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * * * * * * *
38658 TCCTCAAAGAGTAAGATGCCTTTCAAAGCCCACACGAGTTGGAGGCATTTTTCAGTCCTTAAAAA
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
* * * * *
38723 GCAAGACGCCTCTTAAAGCCCACACCAGTTGGTGGCATTTTCCAG
66 GCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * * *
38768 TACTCAAAGAGCAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCA-TTTTCCAATCCTCAAAG
1 TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAG
* * * * *
38832 CGCTGGATGCTTTCTCTTTGCAAAGCCCGCACGAGTTGGTGGCACCTTCCAG
65 AGCAGGATGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * ** *
38884 TCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCT
1 TCCTCAAAGAGCAGGA------TGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCT
38949 CAAAGAGCAGGATGCACTTT
60 CAAAGAGCAGGATGC-CTTT
38969 ATTTTCCTCT
Statistics
Matches: 339, Mismatches: 67, Indels: 28
0.78 0.15 0.06
Matches are distributed among these distances:
109 5 0.01
110 173 0.51
111 3 0.01
113 3 0.01
114 2 0.01
116 59 0.17
117 42 0.12
119 2 0.01
120 2 0.01
122 44 0.13
123 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (110 bp):
TCCTCAAAGAGCAGGATGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
GCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
Found at i:40014 original size:55 final size:55
Alignment explanation
Indices: 39928--40248 Score: 306
Period size: 55 Copynumber: 5.6 Consensus size: 55
39918 ATTATTCCAT
* *
39928 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
* * *
39983 GCTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACGCCTCTT-AAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGA
* * **
40038 GTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCGGAC-A
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
* * ** * *
40092 TGTTGGTGGCATTTTCTAGTCCTCAAAGCGGTGGATGCTTTCTCTTTGCAAAGCCCGCACGA
1 -GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACGA
** * *
40154 GTTGGTGGCACCTTCCAGTCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACGA
*
40215 GTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
40249 TGCACTTTAT
Statistics
Matches: 218, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
54 3 0.01
55 122 0.56
56 2 0.01
57 1 0.00
59 2 0.01
60 3 0.01
61 78 0.36
62 7 0.03
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (55 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
Found at i:40400 original size:42 final size:41
Alignment explanation
Indices: 40352--40452 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 41
40342 TTTCACCTTA
*
40352 TCCTCAAGAAGTAGGACACT-TTCCTTTTCTTCTCTTCCTTTG
1 TCCTCAAGAAGTAGGACACTATTCC-ATTC-TCTCTTCCTTTG
* * * * *
40394 TCCTCAAGGAGCAAGAC-CTATTTCATTCTCTTTTCCTTTG
1 TCCTCAAGAAGTAGGACACTATTCCATTCTCTCTTCCTTTG
* *
40434 TCCTCAAAAAGTGGGACAC
1 TCCTCAAGAAGTAGGACAC
40453 CCCTTCCATT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
40 23 0.50
41 6 0.13
42 17 0.37
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.37
Consensus pattern (41 bp):
TCCTCAAGAAGTAGGACACTATTCCATTCTCTCTTCCTTTG
Found at i:41307 original size:55 final size:55
Alignment explanation
Indices: 41216--41536 Score: 315
Period size: 55 Copynumber: 5.6 Consensus size: 55
41206 ATTATTCCAT
* *
41216 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
* * *
41271 GTTGGTGGCATTTTCCAGTCCTCAAAAAGCAAGACGCCTCTT-AAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGA
* * *
41326 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCGCA-TA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
* * *
41380 TGTTGGTGGCATTTTCCAGTCCTCAAAGTGCAGGATGCTTTCTCTTTGCAAAGCCCGCACGA
1 -GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACGA
** * * *
41442 GTTGGTGGCACCTTCTAGTCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-----CC-TTTCAAAGCCCACACGA
* * *
41503 GTTGGTGACACTTTT-TAGTCCTCAAAGAGTAGGA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
41537 TGCACTTTAT
Statistics
Matches: 222, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
54 3 0.01
55 125 0.56
56 2 0.01
57 1 0.00
59 2 0.01
60 3 0.01
61 79 0.36
62 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (55 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGA
Found at i:41686 original size:42 final size:40
Alignment explanation
Indices: 41634--41727 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
41624 CTCTTTCTCA
* * *
41634 CTTTATCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
41676 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
41716 CTTTGTCCTCAA
1 CTTTGTCCTCAA
41728 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:42447 original size:19 final size:21
Alignment explanation
Indices: 42395--42449 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
42385 AATTTCAATA
*
42395 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
** *
42416 AAATGTATTGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
42436 -TTTGTATCGATACA
1 ATTTGTATCGATACA
42450 ATGTTTCGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:42699 original size:110 final size:114
Alignment explanation
Indices: 42502--42825 Score: 363
Period size: 110 Copynumber: 2.8 Consensus size: 114
42492 AGTATTCCAT
* * *
42502 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCCCTT-CAAAGCCCACACGAGTTGGTGGT
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACGAGTTGGTGGC
* *
42566 ATTTTCCAGTCCTCAAAAAGCAGG-TCGC-CTC-T-TAAAGCCCACACCA
66 ATTTTTCAGTCCTCAAAGAGCAGGAT-GCTCTCTTGTAAAGCCCACACCA
* * *
42612 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCAAAGCCCGCACAAGTTGGTGGC
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACGAGTTGGTGGC
* * **
42676 ATTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGCCCGCATGA
66 ATTTTTCAGTCCTCAAAGAGCAGGATGC--TCTC-TTGTAAAGCCCACACCA
* * * * *
42728 GTTGGTGGCACCTTCCAATCCTCAATGAGTAGGACGCCTTTCCTTTTAAAAGCCCACATGAGTTG
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCC-----AAAGCCCACACGAGTTG
*
42793 GTGGCATTTTTTAGTCCTCAAAGAGCAGGATGC
61 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGC
42826 ACTTTATTTT
Statistics
Matches: 178, Mismatches: 22, Indels: 16
0.82 0.10 0.07
Matches are distributed among these distances:
109 3 0.02
110 77 0.43
111 1 0.01
113 3 0.02
115 1 0.01
116 42 0.24
117 6 0.03
122 45 0.25
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (114 bp):
GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCAAAGCCCACACGAGTTGGTGGC
ATTTTTCAGTCCTCAAAGAGCAGGATGCTCTCTTGTAAAGCCCACACCA
Found at i:42731 original size:61 final size:59
Alignment explanation
Indices: 42502--42822 Score: 297
Period size: 55 Copynumber: 5.6 Consensus size: 59
42492 AGTATTCCAT
* * * * *
42502 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGC---CC-TTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
* * * * * **
42557 GTTGGTGGTATTTTCCAGTCCTCAAAAAGCAGGTCG----CCTCTTAAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
**
42612 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCC----AAAGCCCGCACAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
* * *
42667 GTTGGTGGCATTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGCCCGCATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTC-CTTT-TAAAGCCCGCATGA
** * * * *
42728 GTTGGTGGCACCTTCCAATCCTCAATGAGTAGGACGCCTTTCCTTTTAAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCTTTT-AAAGCCCGCATGA
**
42789 GTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
42823 TGCACTTTAT
Statistics
Matches: 219, Mismatches: 34, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
54 2 0.01
55 126 0.58
56 1 0.00
59 2 0.01
60 1 0.00
61 82 0.37
62 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (59 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
Found at i:44036 original size:61 final size:58
Alignment explanation
Indices: 43790--44110 Score: 340
Period size: 55 Copynumber: 5.6 Consensus size: 58
43780 ATTATTCCAT
* *
43790 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACG--C-CTTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACGA
* * *
43845 GTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACGC-CTC-TT-AATGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACGA
43900 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG--CT-TTTCAAAGCCCACAC-A
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACGA
* * * *
43954 TGTTGGTGGCATTTTCCAGTCCTCAAAGTGCAGAATGCTTTCTCTTTGCAAAGCCCGCACGA
1 -GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGC--TCTCTTT-CAAAGCCCACACGA
** * * *
44016 GTTGGTGGCACCTTCCAGTCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTCT-C-TTTCAAAGCCCACACGA
* * *
44077 GTTGGTGACACTTTT-TAGTCCTCAAAGAGTAGGA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
44111 TGCACTTTAT
Statistics
Matches: 224, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
54 5 0.02
55 122 0.54
56 3 0.01
57 1 0.00
59 2 0.01
60 5 0.02
61 79 0.35
62 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (58 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACGA
Found at i:44261 original size:42 final size:40
Alignment explanation
Indices: 44209--44302 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
44199 CTCTTTCTCA
* * *
44209 CTTTATCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
44251 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
44291 CTTTGTCCTCAA
1 CTTTGTCCTCAA
44303 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:45022 original size:19 final size:21
Alignment explanation
Indices: 44970--45024 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
44960 AATTTCAATA
*
44970 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
** *
44991 AAATGTATTGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
45011 -TTTGTATCGATACA
1 ATTTGTATCGATACA
45025 ATGTTTCGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:45306 original size:61 final size:59
Alignment explanation
Indices: 45077--45397 Score: 290
Period size: 55 Copynumber: 5.6 Consensus size: 59
45067 AGTATTCCAT
* * * * *
45077 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGC---CC-TTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
* * * * * **
45132 GTTGGTGGTATTTTCCAGTCCTCAAAAAGCAGGTCG----CCTCTTAAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
**
45187 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCC----AAAGCCCGCACAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
* * *
45242 GTTGGTGGCATTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGCCCGCATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTC-CTTT-TAAAGCCCGCATGA
** * * * *
45303 GTTGGTGGCACCTTCCAATCCTTAATGAGCAGGACGCCTTTCCTTTTAAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTCCTTTT-AAAGCCCGCATGA
*
45364 GTTGGTGGCACTTTT-TAGTCCTCAAAGAGCAGGA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
45398 TGCACTTTAT
Statistics
Matches: 219, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
54 2 0.01
55 126 0.58
56 1 0.00
59 2 0.01
60 1 0.00
61 80 0.37
62 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (59 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTCCTTTTAAAGCCCGCATGA
Found at i:46267 original size:22 final size:21
Alignment explanation
Indices: 46242--46285 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
46232 AATTTTGAAG
*
46242 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
* *
46264 TTCAGTAAATGTATTGATACA
1 TTCAATAAATGTATCGATACA
46285 T
1 T
46286 AAGTTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:46301 original size:19 final size:21
Alignment explanation
Indices: 46249--46303 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
46239 AAGTTCAATA
*
46249 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
** *
46270 AAATGTATTGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
46290 -TTTGTATCGATACA
1 ATTTGTATCGATACA
46304 ATGTTTCGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:46553 original size:110 final size:113
Alignment explanation
Indices: 46356--46679 Score: 343
Period size: 110 Copynumber: 2.8 Consensus size: 113
46346 ATTATTACAT
** * * *
46356 GTTGGTGGCACTTTCCTGTCCTTAAAGAGCAGGACGCCCTT-CAAAGCCCACACGAGTTGGTGGC
1 GTTGGTGGCACTTTCCAATCCTCAAAGAGCAGGACG-CTTTCCAAAGCCCACATGAGTTGGTGGC
* *
46420 ATTTTCCAGTCCTCAAAAAGCAGG-TCGC-CTC-T-TAAAGCCCACACCA
65 ATTTTTCAGTCCTCAAAGAGCAGGAT-GCTCTCTTGTAAAGCCCACACCA
* * * *
46466 GTTGGTGGCATTTTCCAATCCTCAAAAAGCAGGACGCTTTCCAAAGCCCGCATAAGTTGGTGGCA
1 GTTGGTGGCACTTTCCAATCCTCAAAGAGCAGGACGCTTTCCAAAGCCCACATGAGTTGGTGGCA
* * **
46531 TTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGCCCGCATGA
66 TTTTTCAGTCCTCAAAGAGCAGGATGC--TCTC-TTGTAAAGCCCACACCA
* * *
46582 GTTGGTGGCACTTTCCAATCCTCAATGAGTAGGACACCTTTCCTTTTAAAAGCCCACATGAGTTG
1 GTTGGTGGCACTTTCCAATCCTCAAAGAGCAGGAC-GCTTTCC-----AAAGCCCACATGAGTTG
*
46647 GTGGCATTTTTTAGTCCTCAAAGAGCAGGATGC
60 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGC
46680 ACTTTATTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
109 3 0.02
110 74 0.42
111 1 0.01
113 3 0.02
115 1 0.01
116 42 0.24
117 6 0.03
122 46 0.26
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (113 bp):
GTTGGTGGCACTTTCCAATCCTCAAAGAGCAGGACGCTTTCCAAAGCCCACATGAGTTGGTGGCA
TTTTTCAGTCCTCAAAGAGCAGGATGCTCTCTTGTAAAGCCCACACCA
Found at i:46585 original size:61 final size:57
Alignment explanation
Indices: 46356--46679 Score: 277
Period size: 55 Copynumber: 5.6 Consensus size: 57
46346 ATTATTACAT
* * * * *
46356 GTTGGTGGCACTTTCCTGTCCTTAAAGAGCAGGACGC---CCTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCCTT-AAAGCCCACATGA
* * **
46411 GTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGG-TCGC-CT-CTTAAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT-GCTTTCCTTAAAGCCCACATGA
* * * * *
46466 GTTGGTGGCATTTTCCAATCCTCAAAAAGCAGGACGCTTTCC--AAAGCCCGCATAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCCTTAAAGCCCACATGA
* * *
46521 GTTGGTGGCATTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGCCCGCATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTC-C--T-TAAAGCCCACATGA
* * * * **
46582 GTTGGTGGCACTTTCCAATCCTCAATGAGTAGGACACCTTTCCTTTTAAAAGCCCACATGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-TGCTTTCC--TT-AAAGCCCACATGA
**
46643 GTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATGC
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
46680 ACTTTATTTT
Statistics
Matches: 220, Mismatches: 35, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
55 123 0.56
56 5 0.02
57 1 0.00
60 2 0.01
61 84 0.38
62 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (57 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCCTTAAAGCCCACATGA
Found at i:47905 original size:61 final size:56
Alignment explanation
Indices: 47628--47948 Score: 326
Period size: 55 Copynumber: 5.6 Consensus size: 56
47618 ATTATTCCAT
* *
47628 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCC-TTTCAAAGCCCACACAA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACGA
* * *
47683 GTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGACGCCTTTT-AAAGCCCACACCA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACGA
* **
47738 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCGGAC-A
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACGA
* * * * * *
47792 TGTTGGTGGCATTTTCCAGTCCTCAAAGCGCTGTATGCTTTCTCTTTGCAAAGCCCGCACGA
1 -GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC---CT-TTT-CAAAGCCCACACGA
* * * *
47854 GTTGGTGGCACCTTCCAGTCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCGCACATGA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACG-----CCTTTTCAAAGCCCACACGA
* **
47915 GTTGGTGACACTTTTTAGTCCTCAAAGAGCAGGA
1 GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
47949 TGCACTTTAT
Statistics
Matches: 224, Mismatches: 27, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
54 6 0.03
55 123 0.55
56 3 0.01
59 2 0.01
60 3 0.01
61 80 0.36
62 4 0.02
63 2 0.01
66 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (56 bp):
GTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACGA
Found at i:48860 original size:19 final size:21
Alignment explanation
Indices: 48808--48862 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
48798 AATTTCAATA
*
48808 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
** *
48829 AAATGTATTGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
48849 -TTTGTATCGATACA
1 ATTTGTATCGATACA
48863 ATGTTTCGTT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:49001 original size:55 final size:55
Alignment explanation
Indices: 48915--49113 Score: 240
Period size: 55 Copynumber: 3.6 Consensus size: 55
48905 ATTATTCCAT
* * *
48915 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCCCTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCCTTCAAAGCCCACACAA
* * * * *
48970 GTTGGTGGTATTTTCTAGTCCTCAAAAAGCAGGTCGCCTCTT-AAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCC-CTTCAAAGCCCACACAA
* * *
49025 GTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACG-CTTTCCAAAGCCCGCACAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCCTT-CAAAGCCCACACAA
* * *
49080 GTTGGTAGCATTTTTCAGTCCTCAAAGCGCAGGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
49114 TGCTTTCTCT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.02
54 1 0.01
55 116 0.95
56 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (55 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCCTTCAAAGCCCACACAA
Found at i:49172 original size:116 final size:118
Alignment explanation
Indices: 48915--49238 Score: 314
Period size: 110 Copynumber: 2.8 Consensus size: 118
48905 ATTATTCCAT
* * * * * *
48915 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCCCTT-C-AAAGCCCACACGAGTTGGTGG
1 GTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTCCTAAAGCCCACACAAGTTGGTAG
* * * * **
48978 TA-TTTTCTAGTCCTCAAAAAGCAGG-TCGC---CTC--T-TAAAGCCCACACCA
66 CACTTTT-TAGTCCTCAAAGAGCAGGAT-GCTTTCTCTTTGTAAAGTCCGCATGA
** *
49025 GTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACG-CTTTCC-AAAGCCCGCACAAGTTGGTAG
1 GTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTCCTAAAGCCCACACAAGTTGGTAG
*
49088 CA-TTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGTAAAGTCCGCATGA
66 CACTTTTT-AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGTAAAGTCCGCATGA
* **
49141 GTTGGTGGCACCTTCCAATCCTCAATGAGCAGGACGCCTTTCCTTTTAAAAGCCCACATGAGTTG
1 GTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTCC---T-AAAGCCCACACAAGTTG
*
49206 GTGGCACTTTTTAGTCCTCAAAGAGCAGGATGC
62 GTAGCACTTTTTAGTCCTCAAAGAGCAGGATGC
49239 ACTTTATTTT
Statistics
Matches: 176, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
109 4 0.02
110 74 0.42
111 1 0.01
113 3 0.02
115 1 0.01
116 43 0.24
117 6 0.03
122 39 0.22
123 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (118 bp):
GTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGACGCCTTTCCTAAAGCCCACACAAGTTGGTAG
CACTTTTTAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGTAAAGTCCGCATGA
Found at i:49173 original size:61 final size:60
Alignment explanation
Indices: 49012--49238 Score: 187
Period size: 61 Copynumber: 3.8 Consensus size: 60
49002 GTCGCCTCTT
** ** *
49012 AAAGCCCACACCAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACGCTTTCC-----
1 AAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATGCTTTCCTTTTA
* ** * ** * * *
49067 AAAGCCCGCACAAGTTGGTAGCATTTTTCAGTCCTCAAAGCGCAGGATGCTTTCTCTTTGT-
1 AAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATGCTTTC-CTTT-TA
* * * *
49128 AAAGTCCGCATGAGTTGGTGGCACCTTCCAATCCTCAATGAGCAGGACGCCTTTCCTTTTA
1 AAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATG-CTTTCCTTTTA
* ** *
49189 AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGC
1 AAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATGC
49239 ACTTTATTTT
Statistics
Matches: 138, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
55 47 0.34
56 1 0.01
60 2 0.01
61 83 0.60
62 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (60 bp):
AAAGCCCACATGAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATGCTTTCCTTTTA
Found at i:49387 original size:42 final size:40
Alignment explanation
Indices: 49334--49427 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
49324 CTCTTTTTCA
* * *
49334 CTTTATCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
49376 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
49416 CTTTGTCCTCAA
1 CTTTGTCCTCAA
49428 AAAGTGAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.19, C:0.30, G:0.11, T:0.40
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:50537 original size:61 final size:59
Alignment explanation
Indices: 50203--50537 Score: 322
Period size: 55 Copynumber: 5.8 Consensus size: 59
50193 ATTATTCCAT
* *
50203 GTTGGTGGCACTTTCCAGTCCTTAAAGAGCAGGACGCC----TTTCAAAGCCCACACGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACGA
* * * *
50258 GTTGGAGGCATTTTCCAGTCCTCAAAAAGCAGGACGCC---TCTT-AAAGCCCACACCA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACGA
* *
50313 GTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACG-C---TTTTCAAAGCCCACACAA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACGA
* * * * *
50368 GTTGGTGGCATTTTCCAGTCCTCAAAGCGCTGGATG-CTTTCTCTTTGCAAAGCCCGCTCGA
1 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTT-T-TTT-CAAAGCCCACACGA
* * *
50429 GTTGGTGGCACCTTT-CAGTCCTCAATGAGCAGGACGCCTTTCCTTTTCAAAGCCCACATGA
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTT--TTTTCAAAGCCCACACGA
* *
50490 GTTGGTGGCACTTTT-AAGTCCTCAAAGAGCAGGATGCACTTTATTTTC
1 GTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGC-CTTT-TTTTC
50538 CTCTTTCTTT
Statistics
Matches: 237, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
54 4 0.02
55 124 0.52
56 2 0.01
59 1 0.00
60 3 0.01
61 87 0.37
62 14 0.06
63 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (59 bp):
GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTTTTCAAAGCCCACACGA
Found at i:50667 original size:42 final size:40
Alignment explanation
Indices: 50614--50707 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 40
50604 GGGACGTACT
* * *
50614 CTTTTTCCTCAAGAAGCAGGACACT-TTCCTTTTCTTCTCTTC
1 CTTTGTCCTCAAGAAGCAAGAC-CTATTCC-ATTC-TCTCTTC
* * *
50656 CTTTGTCCTCAAGGAGCAAGACCTATTTCATTCTCTTTTC
1 CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
50696 CTTTGTCCTCAA
1 CTTTGTCCTCAA
50708 AAAGTGGGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 18 0.40
41 5 0.11
42 22 0.49
ACGTcount: A:0.18, C:0.30, G:0.11, T:0.41
Consensus pattern (40 bp):
CTTTGTCCTCAAGAAGCAAGACCTATTCCATTCTCTCTTC
Found at i:51429 original size:19 final size:21
Alignment explanation
Indices: 51381--51435 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
51371 AATTTCAATA
*
51381 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
51402 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
51422 -TTTGTATCGATACA
1 ATTTGTATCGATACA
51436 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:53937 original size:52 final size:52
Alignment explanation
Indices: 53870--54003 Score: 191
Period size: 52 Copynumber: 2.6 Consensus size: 52
53860 TTAAGTTTCT
53870 CAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACAC
* *
53921 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACAC
* * *
53974 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
54004 TCGTTATTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
50 2 0.03
51 6 0.08
52 50 0.68
53 15 0.21
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACAC
Found at i:54131 original size:107 final size:108
Alignment explanation
Indices: 53937--54133 Score: 252
Period size: 107 Copynumber: 1.8 Consensus size: 108
53927 TCCTTTAATC
* * *
53937 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
* **
54002 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTTACCTCCGA
* * *** * * *
54045 GGGGATACTCCAACCCCGATTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
*
54109 CCCCGTTATTTCCGAGGGGATACTC
66 CCCCGTTATTTCAGAGGGGATACTC
54134 TAATCCCGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
107 51 0.69
108 23 0.31
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCAGAGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:54165 original size:79 final size:79
Alignment explanation
Indices: 54014--54238 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
54004 TCGTTATTTC
**
54014 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAT
* *
54079 ATTGATTTCTCATA
66 ATCGATTTCTCACA
* * * * * *
54093 ATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAATCCCGATTTTTTTTCC-TAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAT
54157 CATCGATTTCTCACA
66 -ATCGATTTCTCACA
* *
54172 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG-TTATTA-TCTCCAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT-TTATTC-CCAAA
54235 ATAT
64 ATAT
54239 TAAATTTCTC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 6 0.05
79 115 0.93
80 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAT
ATCGATTTCTCACA
Found at i:58967 original size:31 final size:30
Alignment explanation
Indices: 58909--59049 Score: 129
Period size: 31 Copynumber: 4.4 Consensus size: 30
58899 CCTTACAACA
* * *
58909 CTATCTTTTGAAGGCTAAGACATAACCTCC
1 CTATCTTTTCAAGGCTAAGATAGAACCTCC
*
58939 CTATCTTTTCACAGGTTAAGATAGAACCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAACCTCC
*
58970 CTATCTTTTCATAGGCTAAGATAGGACCTCTCTCC
1 CTATCTTTTCA-AGGCTAAGATA-GA--AC-CTCC
* *
59005 CTATCTTTTTTAAAGGCTAAGATAGAACCTCA
1 CTATC--TTTTCAAGGCTAAGATAGAACCTCC
* *
59037 CAATCATTTCAAG
1 CTATCTTTTCAAG
59050 AATTATACCC
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
30 16 0.18
31 37 0.41
32 9 0.10
33 1 0.01
34 1 0.01
35 11 0.12
36 11 0.12
37 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (30 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCC
Found at i:59528 original size:52 final size:52
Alignment explanation
Indices: 59455--59562 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
59445 ATGCATTTGA
* * * *
59455 AATTCTAGCCGTTGGACTCAATGTATCGATATAATTCATAATGTATTGATAT
1 AATTATAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATAT
* * *
59507 AATTATAGCCATTGGGCTCAATGTATCGATATAATTTACCATGTATCGATAT
1 AATTATAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATAT
59559 AATT
1 AATT
59563 TAACTAGGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (52 bp):
AATTATAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATAT
Found at i:59552 original size:20 final size:20
Alignment explanation
Indices: 59527--59564 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
59517 ATTGGGCTCA
59527 ATGTATCGATATAATTTACC
1 ATGTATCGATATAATTTACC
59547 ATGTATCGATATAATTTA
1 ATGTATCGATATAATTTA
59565 ACTAGGGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATATAATTTACC
Found at i:59651 original size:32 final size:33
Alignment explanation
Indices: 59610--59673 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
59600 CATTTTATGG
*
59610 TGTATCGATACAAAG-AACATGTATTGATACAA
1 TGTATCGATACAAAGCAACATGTATCGATACAA
* *
59642 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACAAAGCAACATGTATCGATACA
59674 TCTGGATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTATCGATACAAAGCAACATGTATCGATACAA
Found at i:60833 original size:21 final size:21
Alignment explanation
Indices: 60807--60854 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
60797 TATGGTAGTG
60807 AACATCTTCTGAATTGATGAC
1 AACATCTTCTGAATTGATGAC
60828 AACATCTTCTGAATTGATGAC
1 AACATCTTCTGAATTGATGAC
60849 AACATC
1 AACATC
60855 CTCGGCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (21 bp):
AACATCTTCTGAATTGATGAC
Found at i:62131 original size:21 final size:20
Alignment explanation
Indices: 62097--62135 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62087 TTGTTTGGGT
*
62097 TTAAAATGGATTTTTGATGGA
1 TTAAAAAGGA-TTTTGATGGA
*
62118 TTAAAAAGGGTTTTGATG
1 TTAAAAAGGATTTTGATG
62136 AAGAGAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (20 bp):
TTAAAAAGGATTTTGATGGA
Found at i:63427 original size:21 final size:19
Alignment explanation
Indices: 63403--63454 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
63393 ATGCAAATTT
*
63403 TTATTTTTCTTAGTTAACTCA
1 TTATTTTTCTTA--CAACTCA
63424 TTATTTTCATCTTACAACTCA
1 TTATTTT--TCTTACAACTCA
63445 TT-TTTTTCTT
1 TTATTTTTCTT
63455 TTCCAACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.14
20 4 0.14
21 15 0.54
23 5 0.18
ACGTcount: A:0.21, C:0.17, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATTTTTCTTACAACTCA
Found at i:63472 original size:21 final size:20
Alignment explanation
Indices: 63418--63475 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
63408 TTTCTTAGTT
63418 AACTCATTATTTTCATCTTAC
1 AACTCATTATTTTC-TCTTAC
* * *
63439 AACTCATTTTTTTCTTTTCC
1 AACTCATTATTTTCTCTTAC
63459 AACTCATTCATTTTCTC
1 AACTCATT-ATTTTCTC
63476 CTTTAGTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (20 bp):
AACTCATTATTTTCTCTTAC
Found at i:65567 original size:52 final size:52
Alignment explanation
Indices: 65511--65620 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
65501 AATGCATTTG
* * * *
65511 AAATTCTAGCCATTGGACTTAGTGTATCGATATAGTTCACAATGTATTGATA
1 AAATTCTAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATA
* * * * *
65563 AAATTATAGCCATTGGGCTCAATGTATTGATATAATTCGCTATGTATCGATA
1 AAATTCTAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATA
*
65615 TAATTC
1 AAATTC
65621 AATTAGGGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTCTAGCCATTGGACTCAATGTATCGATATAATTCACAATGTATCGATA
Found at i:65693 original size:114 final size:114
Alignment explanation
Indices: 65553--65793 Score: 374
Period size: 114 Copynumber: 2.1 Consensus size: 114
65543 TAGTTCACAA
* * * * *
65553 TGTATTGATAAAATTATAGCCATTGGGCTCAATGTATTGATATAATTCGCTATGTATCGATATAA
1 TGTATTGATACAATTATAGCCATTGGGCTCAATGTATCGATATAATTCACCATGTATCGATACAA
*
65618 TTCAATTAGGGTAGTTACTACCAGTTTTATCTATCGATACATTTTATGG
66 TTCAATTAGGGTAGCTACTACCAGTTTTATCTATCGATACATTTTATGG
* *
65667 TGTATTGATACAATTATAGCCGTTGGGCTCAATGTATCGATATAATTTACCATGTATCGATACAA
1 TGTATTGATACAATTATAGCCATTGGGCTCAATGTATCGATATAATTCACCATGTATCGATACAA
* * *
65732 TTCAATTAGGGTAGCTATTGCTAGTTTTATCTATCGATACATTTTATGG
66 TTCAATTAGGGTAGCTACTACCAGTTTTATCTATCGATACATTTTATGG
*
65781 TGTATCGATACAA
1 TGTATTGATACAA
65794 AGAACATGTA
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (114 bp):
TGTATTGATACAATTATAGCCATTGGGCTCAATGTATCGATATAATTCACCATGTATCGATACAA
TTCAATTAGGGTAGCTACTACCAGTTTTATCTATCGATACATTTTATGG
Found at i:65836 original size:114 final size:113
Alignment explanation
Indices: 65581--65844 Score: 273
Period size: 114 Copynumber: 2.3 Consensus size: 113
65571 GCCATTGGGC
* * ** * *
65581 TCAATGTATTGATATAATTCGCTATGTATCGATATAATTCAATTAGGGTAGTTACTACCAGTTTT
1 TCAATGTATCGATATAATGCAATATGTATCGATACAATTCAATTAGGGTAGCTACTACCAGTTTT
* * * * *
65646 ATCTATCGATACATTTTATGGTGTATTGATACAATTATAGCCGTTGGGC
66 ATCTATCGATACATTTTATGGTGTATCGATACAA-TAGAACCGTTGCGA
** ** * * *
65695 TCAATGTATCGATATAATTTACCATGTATCGATACAATTCAATTAGGGTAGCTATTGCTAGTTTT
1 TCAATGTATCGATATAATGCAATATGTATCGATACAATTCAATTAGGGTAGCTACTACCAGTTTT
*
65760 ATCTATCGATACATTTTATGGTGTATCGATACAA-AGAACATGTAT-CGA
66 ATCTATCGATACATTTTATGGTGTATCGATACAATAGAAC-CGT-TGCGA
* *
65808 TATAATGTATCGATACTAA-GCAATATGTATCAATACA
1 T-CAATGTATCGATA-TAATGCAATATGTATCGATACA
65845 TCTAGGTGTG
Statistics
Matches: 125, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
112 3 0.02
113 4 0.03
114 115 0.92
115 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (113 bp):
TCAATGTATCGATATAATGCAATATGTATCGATACAATTCAATTAGGGTAGCTACTACCAGTTTT
ATCTATCGATACATTTTATGGTGTATCGATACAATAGAACCGTTGCGA
Found at i:68958 original size:13 final size:13
Alignment explanation
Indices: 68918--68967 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
68908 CCGTTATAAG
68918 CAATGTATCGATA
1 CAATGTATCGATA
68931 CAA--T-TC-AT-
1 CAATGTATCGATA
68939 C-ATGTATCGATA
1 CAATGTATCGATA
68951 CAATGTATCGATA
1 CAATGTATCGATA
68964 CAAT
1 CAAT
68968 ATCCTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 18 0.58
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:68960 original size:33 final size:33
Alignment explanation
Indices: 68918--68986 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
68908 CCGTTATAAG
68918 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATATCAT-ATGTATCGATA
*
68951 CAATGTATCGATACAATATCCTATGTATCGATA
1 CAATGTATCGATACAATATCATATGTATCGATA
68984 CAA
1 CAA
68987 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATATCATATGTATCGATA
Found at i:69059 original size:19 final size:20
Alignment explanation
Indices: 69015--69067 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
69005 CTGTCAGTTT
* **
69015 CATGTATCGATATAATTGTC
1 CATGTATCGATACAATTGAA
69035 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
69054 CATGTATCAATACA
1 CATGTATCGATACA
69068 CTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:70001 original size:20 final size:20
Alignment explanation
Indices: 69976--70035 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
69966 TTTTACCTAG
*
69976 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
69996 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTATCA
*
70016 ATGTATTGATACATTCTATC
1 ATGTATCGATACATT-TATC
70036 TTTTTTACCT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:70073 original size:20 final size:20
Alignment explanation
Indices: 70048--70200 Score: 102
Period size: 20 Copynumber: 7.8 Consensus size: 20
70038 TTTTACCTAG
70048 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
70068 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
** *
70088 ATGTATCGATACATAATAC-
1 ATGTATCGATACATTTTTCA
*
70107 AT-T-TTG-T-C-TTTTTACCCA
1 ATGTATCGATACATTTTT---CA
*
70125 GATGTATTGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
70146 ATGTATCGATAAATGTATGA
1 ATGTATCGATACATTTTTCA
* *
70166 ATATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
70186 ATGTATCGATACATT
1 ATGTATCGATACATT
70201 CTGTCTTTTT
Statistics
Matches: 99, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
14 2 0.02
15 1 0.01
16 1 0.01
17 3 0.03
18 1 0.01
19 4 0.04
20 75 0.76
21 5 0.05
22 1 0.01
23 1 0.01
24 5 0.05
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:70082 original size:72 final size:73
Alignment explanation
Indices: 69965--70182 Score: 312
Period size: 72 Copynumber: 2.9 Consensus size: 73
69955 AAAAGTCACA
* *
69965 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCAATACATGTATGAATGTATTGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
70030 TCTATCT-
66 TCTATCTC
70037 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
* *
70102 AATACATTTTGTC
66 --T-C--TATCTC
* * * *
70115 TTTTTACCCAGATGTATTGATACATTTTTCAATGTATCGATAAATGTATGAATATATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
70180 TCT
66 TCT
70183 TCAATGTATC
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
72 63 0.48
73 1 0.01
74 1 0.01
75 2 0.02
76 1 0.01
77 3 0.02
78 61 0.46
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (73 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTATCTC
Found at i:81162 original size:15 final size:15
Alignment explanation
Indices: 81142--81172 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
81132 AGACATGGAG
81142 AAAATGACTTTTGTA
1 AAAATGACTTTTGTA
81157 AAAATGACTTTTGTA
1 AAAATGACTTTTGTA
81172 A
1 A
81173 CCATGTGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (15 bp):
AAAATGACTTTTGTA
Found at i:83024 original size:10 final size:9
Alignment explanation
Indices: 83003--83104 Score: 75
Period size: 9 Copynumber: 10.9 Consensus size: 9
82993 TCCTTCGTAT
83003 AAAAAAACA
1 AAAAAAACA
*
83012 AAAAAAGCA
1 AAAAAAACA
83021 AAAAAAACA
1 AAAAAAACA
*
83030 AAGAAAAATA
1 AA-AAAAACA
83040 AAAAAAACCA
1 AAAAAAA-CA
*
83050 AGAAAAACA
1 AAAAAAACA
83059 ATTTAAAAAA-A
1 A---AAAAAACA
83070 AAGAAAAA-A
1 AA-AAAAACA
**
83079 CCAAAAACA
1 AAAAAAACA
83088 AAAAACAA-A
1 AAAAA-AACA
83097 AAAAAAAC
1 AAAAAAAC
83105 GGAAAAAGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
8 8 0.11
9 42 0.57
10 17 0.23
11 2 0.03
12 5 0.07
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (9 bp):
AAAAAAACA
Found at i:83026 original size:18 final size:19
Alignment explanation
Indices: 83003--83104 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 19
82993 TCCTTCGTAT
*
83003 AAAAAAACAAA-AAAAGCA
1 AAAAAAACAAAGAAAAACA
*
83021 AAAAAAACAAAGAAAAATA
1 AAAAAAACAAAGAAAAACA
*
83040 AAAAAAACCAAGAAAAACA
1 AAAAAAACAAAGAAAAACA
83059 ATTTAAAAAA-AAAGAAAAA-A
1 A---AAAAAACAAAGAAAAACA
**
83079 CCAAAAACAAA-AAACAA-A
1 AAAAAAACAAAGAAA-AACA
83097 AAAAAAAC
1 AAAAAAAC
83105 GGAAAAAGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.12
18 23 0.33
19 23 0.33
20 1 0.01
21 8 0.12
22 6 0.09
ACGTcount: A:0.81, C:0.11, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAACAAAGAAAAACA
Found at i:83036 original size:29 final size:29
Alignment explanation
Indices: 83011--83103 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 29
83001 ATAAAAAAAC
*
83011 AAAAAAAGCAAAAAAAACAAAGAAAAATA
1 AAAAAAACCAAAAAAAACAAAGAAAAATA
* *
83040 AAAAAAACCAAGAAAAACAATTTA-AAAAAAA
1 AAAAAAACCAAAAAAAACAA---AGAAAAATA
*
83071 AGAAAAAACCAAAAACAAA-AAACAAAAA-A
1 A-AAAAAACCAAAAA-AAACAAAGAAAAATA
83100 AAAA
1 AAAA
83104 CGGAAAAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.06
29 21 0.39
30 5 0.09
31 7 0.13
32 15 0.28
33 3 0.06
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.04
Consensus pattern (29 bp):
AAAAAAACCAAAAAAAACAAAGAAAAATA
Found at i:83084 original size:14 final size:12
Alignment explanation
Indices: 83006--83103 Score: 56
Period size: 13 Copynumber: 7.8 Consensus size: 12
82996 TTCGTATAAA
83006 AAAACAAAAAAAGC
1 AAAA-AAAAAAA-C
*
83020 AAAAAAAACAAAG
1 AAAAAAAA-AAAC
83033 AAAAATAAAAAA-
1 AAAAA-AAAAAAC
* *
83045 AACCAAGAAAAAC
1 AA-AAAAAAAAAC
***
83058 AATTTAAAAAA-
1 AAAAAAAAAAAC
* *
83069 AAAGAAAAAACC
1 AAAAAAAAAAAC
83081 AAAAACAAAAAAC
1 AAAAA-AAAAAAC
83094 AAAAAAAAAA
1 AAAAAAAAAA
83104 CGGAAAAAGG
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
11 7 0.11
12 21 0.32
13 27 0.42
14 10 0.15
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:83099 original size:32 final size:31
Alignment explanation
Indices: 83003--83103 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
82993 TCCTTCGTAT
* *
83003 AAAAAAACAAAAA--AAGCAAAAAAAACAAA
1 AAAAAAAAAAAAACCAAGAAAAAAAAACAAA
***
83032 GAAAAATAAAAAAAACCAAGAAAAACAATTTAAA
1 -AAAAA-AAAAAAAACCAAGAAAAA-AAAACAAA
*
83066 AAAAAAGAAAAAACCAA-AAACAAAAAACAAA
1 AAAAAAAAAAAAACCAAGAAA-AAAAAACAAA
83097 AAAAAAA
1 AAAAAAA
83104 CGGAAAAAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
30 5 0.09
31 21 0.38
32 13 0.23
33 12 0.21
34 5 0.09
ACGTcount: A:0.82, C:0.10, G:0.04, T:0.04
Consensus pattern (31 bp):
AAAAAAAAAAAAACCAAGAAAAAAAAACAAA
Found at i:83744 original size:61 final size:60
Alignment explanation
Indices: 83271--83746 Score: 520
Period size: 61 Copynumber: 7.9 Consensus size: 60
83261 GCCTTTCGAG
* ** * *
83271 GCCCACACAAGTTGGTGACATTTTCTAGTCCTCCAAGAACAGGACGCC-TTTC----AAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAA
* * * * *
83326 GCCCATACAAGCTGGTGTCACCTTC-AGTCCTCAAAAAGCAGGACGACTTTTTCTTTTAAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACG-CCTTTTCTTTTAAA
* * * * * *
83386 GTCCATACAAGTTGGTGGCACCTTCTAGTCCTCAAGGAGTAGGACGCTTTTTCCTTTTTAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAA
* *
83447 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGAACG-CTTTTCCTTTTAAA
1 GCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAA
* *
83508 GCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAA
* * *
83569 GCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAAGATG--TTTTCTCTTTGCAAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCT-TTT--AAA
* * * *
83630 GCCCACACAAGTTGGTGGCACCTTCCAGTCTTTAAAGAGCAGGACGCTTTTTCTTTTCAAA
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAA
* * * * *
83691 GCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTT
1 GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTT
83747 CTCTCCTTTG
Statistics
Matches: 363, Mismatches: 43, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
54 17 0.05
55 21 0.06
56 4 0.01
58 2 0.01
59 7 0.02
60 54 0.15
61 228 0.63
62 24 0.07
63 6 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (60 bp):
GCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAA
Found at i:83872 original size:41 final size:41
Alignment explanation
Indices: 83752--84071 Score: 185
Period size: 41 Copynumber: 7.5 Consensus size: 41
83742 TCTTTCTCTC
* * *
83752 CTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCCTCTTTTCC
1 CTTTGTCCTCAAAGAGCAGGACGCATTTCATTT-CCT-TTTT-T
* * * **
83796 CTTTTGTCCTTAAAGAGCAGGATGCTTTTTTTTTCCTTTTTT
1 C-TTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCTTTTTT
* *
83838 CTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTT
1 CTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCC-TTTTTT
* * * * *
83880 CCCTTCTAGTTCTCAAACAGCAGGATGCACTTT-ATTCTCCTTGTTC
1 --CTT-T-GTCCTCAAAGAGCAGGACGCA-TTTCATT-TCCTTTTTT
* * ** ** *
83926 CTTTGTCCTAAAAAAATAGGAAACATTTCATTTCCTTTTTC
1 CTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCTTTTTT
* * * * * *
83967 CTTTTTCTTCAAAGGGTAGGATGCATTTTATTTCCTTTTTT
1 CTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCTTTTTT
* * * * *
84008 CTGTAGTCCCCAAGGAACAGGACCCATTTCATTCTCC-TTTTT
1 CT-TTGTCCTCAAAGAGCAGGACGCATTTCATT-TCCTTTTTT
**
84050 CGTTAATCCTCAAAGAGCAGGA
1 C-TTTGTCCTCAAAGAGCAGGA
84072 TGCCCCCTTC
Statistics
Matches: 211, Mismatches: 53, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
41 71 0.34
42 64 0.30
43 9 0.04
44 10 0.05
45 26 0.12
46 26 0.12
47 5 0.02
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (41 bp):
CTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCTTTTTT
Found at i:83896 original size:46 final size:44
Alignment explanation
Indices: 83751--83921 Score: 141
Period size: 45 Copynumber: 3.9 Consensus size: 44
83741 TTCTTTCTCT
* * * * * *
83751 CCTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCCTCTTTTC
1 CCTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTC
* * * ** **
83795 CCTTTTGTCCTTAAAGAGCAGGATGCTTTTTTTTTCC-TTTTTT-
1 CC-TTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTC
83838 -CTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTC
1 CCTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTC
* * *
83881 CCTTCTAGTTCTCAAACAGCAGGATGCACTTTATTCTCCTT
1 CCTT-T-GTTCTCAAAGAGCAGGACGCACTTCATT-TCCTT
83922 GTTCCTTTGT
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 27 0.26
42 7 0.07
44 10 0.10
45 28 0.27
46 25 0.25
47 5 0.05
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.42
Consensus pattern (44 bp):
CCTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTC
Found at i:87159 original size:51 final size:52
Alignment explanation
Indices: 87074--87194 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 52
87064 GTTATTTCTG
* * *
87074 AGGGGATACTCCAACCCCGGTTTAATTTCTAAAACACTAATTTTCCACAAT-
1 AGGGGATAATCCAACCCCGATTTAATTTCCAAAACACTAATTTTCCACAATC
* * * *
87125 AGGGGATAATTCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 AGGGGATAATCCAACCCCGATTTAATTTCCAAAACACTAATTTTCCACAATC
* *
87177 A-GGGATACTACAACCCCG
1 AGGGGATAATCCAACCCCG
87195 TTATTTTCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 58 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (52 bp):
AGGGGATAATCCAACCCCGATTTAATTTCCAAAACACTAATTTTCCACAATC
Found at i:87231 original size:79 final size:79
Alignment explanation
Indices: 87146--87433 Score: 287
Period size: 79 Copynumber: 3.6 Consensus size: 79
87136 CAACTCCGAT
* * *
87146 TTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTACAACCCCGTTATTTTCGAGGGGAT
1 TTTATTTCTAAAACACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
87211 ACTCCAAACCCTGC
66 ACTCCAAACCCTGC
* * * * * *
87225 TTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTGGCGGGGAT
1 TTTATTTCTAAAACACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
87290 ACTCC-AACCCTAGC
66 ACTCCAAACCCT-GC
* * * * * ** *
87304 CTTATTTCTAAAGCA-TCAATTTCCCACAATCGGGGATACTCCAACCCTGTTATTTTCGAAAGAA
1 TTTATTTCTAAAACACT-AATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
87368 TACTCCAATCCC-GAT
65 TACTCCAAACCCTG-C
* * * * * *
87383 TTTATTTTTAAAATACTGATTT-TCTATAATCAGGGATACTTCAGCCCCGTT
1 TTTATTTCTAAAACACTAATTTCTC-ACAATCAGGGATACTCCAACCCCGTT
87434 GTTATCCCCA
Statistics
Matches: 170, Mismatches: 33, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
78 9 0.05
79 156 0.92
80 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTATTTCTAAAACACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAAACCCTGC
Found at i:91008 original size:48 final size:48
Alignment explanation
Indices: 90942--91041 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
90932 ACAAAAAATG
90942 GATCTCTACCTTCGAGATGGCTAGGTAAACCGGGTTGTTAGAGAAAAA
1 GATCTCTACCTTCGAGATGGCTAGGTAAACCGGGTTGTTAGAGAAAAA
90990 GATCTCTACCTTCGAGATGGCTAGGTAAACCGGGTTGTTAGAGAAAAA
1 GATCTCTACCTTCGAGATGGCTAGGTAAACCGGGTTGTTAGAGAAAAA
91038 GATC
1 GATC
91042 ACCTCAACGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (48 bp):
GATCTCTACCTTCGAGATGGCTAGGTAAACCGGGTTGTTAGAGAAAAA
Done.