Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1491
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: 62219
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:2024 original size:13 final size:13
Alignment explanation
Indices: 2006--2031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1996 ACAAAGATCC
2006 ATGTATCGATACA
1 ATGTATCGATACA
2019 ATGTATCGATACA
1 ATGTATCGATACA
2032 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2027 original size:33 final size:33
Alignment explanation
Indices: 1985--2051 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1975 AAAATTTCCA
***
1985 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2018 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2051 A
1 A
2052 TTTCCTTGGC
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:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2095 original size:19 final size:18
Alignment explanation
Indices: 2071--2138 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2061 CAGTAGCTAA
2071 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2090 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2105 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2122 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2139 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2111 original size:13 final size:13
Alignment explanation
Indices: 2093--2117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2083 ACAATACTTA
2093 TGTATCGATACAT
1 TGTATCGATACAT
2106 TGTATCGATACA
1 TGTATCGATACA
2118 AAACTTATGT
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:2115 original size:32 final size:32
Alignment explanation
Indices: 2074--2136 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2064 TAGCTAATTA
*
2074 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2106 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2137 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2218 original size:21 final size:21
Alignment explanation
Indices: 2194--2250 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2184 CATTTGTAGG
2194 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2215 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2236 ATGTATCGATACATT
1 ATGTATCGATACATT
2251 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2280 original size:18 final size:18
Alignment explanation
Indices: 2257--2292 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2247 CATTTAAATT
2257 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
2275 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
2293 ACACTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:6753 original size:14 final size:14
Alignment explanation
Indices: 6734--6775 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
6724 ATTAGACTTC
6734 ACATCATGCATTCA
1 ACATCATGCATTCA
*
6748 ACATCATGCATTCC
1 ACATCATGCATTCA
*
6762 ACATCACGCATTCA
1 ACATCATGCATTCA
6776 CATTACCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.26
Consensus pattern (14 bp):
ACATCATGCATTCA
Found at i:7389 original size:57 final size:57
Alignment explanation
Indices: 7310--7445 Score: 175
Period size: 57 Copynumber: 2.4 Consensus size: 57
7300 AAAGCCCACG
* *
7310 CAAGTTAA-GGCACCCTTTTAAAGTCCACAAGTCGGTGGCAACATTTTCAAAGCCCA
1 CAAGTTAATGGCAACCTTTTAAAGTCCACAAGTCGGTGGCAACATTTTCAAAGACCA
* * * * *
7366 TATGTTAATGGCAACCTTTTAAAGTCCCCAAGTTGGTGGCAACCTTTTCAAAGACCA
1 CAAGTTAATGGCAACCTTTTAAAGTCCACAAGTCGGTGGCAACATTTTCAAAGACCA
* * *
7423 CAAGTCAGTGGCATCCTTTTAAA
1 CAAGTTAATGGCAACCTTTTAAA
7446 ACCCAGAAGT
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
56 6 0.09
57 61 0.91
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (57 bp):
CAAGTTAATGGCAACCTTTTAAAGTCCACAAGTCGGTGGCAACATTTTCAAAGACCA
Found at i:7406 original size:28 final size:28
Alignment explanation
Indices: 7318--7463 Score: 121
Period size: 28 Copynumber: 5.1 Consensus size: 28
7308 CGCAAGTTAA
* *
7318 GGCACCCTTTTAAAGTCCACAAGTCGGT
1 GGCAACCTTTTAAAGTCCACAAGTCAGT
* * * * * *
7346 GGCAACATTTTCAAAGCCCATATGTTAAT
1 GGCAACCTTTT-AAAGTCCACAAGTCAGT
* **
7375 GGCAACCTTTTAAAGTCCCCAAGTTGGT
1 GGCAACCTTTTAAAGTCCACAAGTCAGT
*
7403 GGCAACCTTTTCAAAGACCACAAGTCAGT
1 GGCAACCTTTT-AAAGTCCACAAGTCAGT
* ** * *
7432 GGCATCCTTTTAAAACCCAGAAGTCAAT
1 GGCAACCTTTTAAAGTCCACAAGTCAGT
7460 GGCA
1 GGCA
7464 GCCCTCTCAA
Statistics
Matches: 92, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
28 48 0.52
29 44 0.48
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (28 bp):
GGCAACCTTTTAAAGTCCACAAGTCAGT
Found at i:7637 original size:52 final size:51
Alignment explanation
Indices: 7563--8026 Score: 310
Period size: 52 Copynumber: 9.0 Consensus size: 51
7553 TGTCTTTTTC
* * * *
7563 TAAGTCTAATGTCACTGGCCTTGAATCAGCAGATTGGCATTCTTCTTATCTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTT-TCATCTT
* * * *
7615 TAAGTCCAATGTCGTTGGCCTTGAATTAGCATATTGGCA-CCTTTGTCATCTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCC-TT-TCATCTT
* * * * * *
7667 TAAGTCTGATATTGTTGGCCTTGAATTAGCACATTGGCACCCTTATCATCTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTT-TCATCTT
* ** * * *
7719 TAAGTCCAATGTTACTGGCCTTGAATTAGCATATTGGCA-CCTTTGTCATTTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCC-TT-TCATCTT
* * * * ** * * *
7771 TAA--ATGATATCGCTGGCCTTAAATCAATATATTGGCA-CTTTTATCATTTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATC-CTT-TCATCTT
* * * * * ** *
7821 TAAGCCCAATGTTGCTGGCCTTGAATCAGTATATTGAAACCCTTATCATCTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTT-TCATCTT
* * * * *
7873 AAAGTCTAATGTCGTTGGCCTTGAATCAGTACTTTGGCA-CCTTTATCATGTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCC-TT-TCATCTT
* * * * *
7925 TAAGTCTAATGTCGTTAGTCTTGAATCAGCACATTGGCATTCCTCTCATTTT
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TCCTTTCATCTT
* * * *
7977 TAAGTCTAATGTTGCTGGCCTTGAATCAGCTCATTAGCATTCTTCTCATC
1 TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTT-TCATC
8027 CTTATCATCT
Statistics
Matches: 330, Mismatches: 71, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
50 37 0.11
51 8 0.02
52 279 0.85
53 4 0.01
54 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (51 bp):
TAAGTCTAATGTCGCTGGCCTTGAATCAGCACATTGGCATCCTTTCATCTT
Found at i:7687 original size:104 final size:104
Alignment explanation
Indices: 7563--8026 Score: 400
Period size: 104 Copynumber: 4.5 Consensus size: 104
7553 TGTCTTTTTC
* * * * *
7563 TAAGTCTAATGTCACTGGCCTTGAATCAGCAGATTGGCATTCTTCTTATCTTTAAGTCCAATGTC
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
* *
7628 GTTGGCCTTGAATTAGCATATTGGCACCTTTGTCATCTT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * ** *
7667 TAAGTCTGATATTGTTGGCCTTGAATTAGCACATTGGCACCCTTATCATCTTTAAGTCCAATGTT
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
* * *
7732 ACTGGCCTTGAATTAGCATATTGGCACCTTTGTCATTTT
66 GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * ** * * *
7771 TAA--ATGATATCGCTGGCCTTAAATCAATATATTGGCACTT-TTATCATTTTTAAGCCCAATGT
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCA-TTCTTATCATCTTTAAGTCCAATGT
* * ** * *
7833 TGCTGGCCTTGAATCAGTATATTGAAACCCTTATCATCTT
65 CGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
* * * * * * * *
7873 AAAGTCTAATGTCGTTGGCCTTGAATCAGTACTTTGGCA-CCTTTATCATGTTTAAGTCTAATGT
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCATTC-TTATCATCTTTAAGTCCAATGT
* * * * * *
7937 CGTTAGTCTTGAATCAGCACATTGGCA--TTCCTCTCATTTT
65 CGCTGGCCTTGAATCAGCATATTGGCACCTT--TGTCATCTT
* * * * *
7977 TAAGTCTAATGTTGCTGGCCTTGAATCAGCTCATTAGCATTCTTCTCATC
1 TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTATCATC
8027 CTTATCATCT
Statistics
Matches: 283, Mismatches: 69, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
102 81 0.29
104 201 0.71
105 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (104 bp):
TAAGTCTAATATCGCTGGCCTTGAATCAGCACATTGGCATTCTTATCATCTTTAAGTCCAATGTC
GCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTT
Found at i:7863 original size:154 final size:154
Alignment explanation
Indices: 7645--7927 Score: 352
Period size: 154 Copynumber: 1.8 Consensus size: 154
7635 TTGAATTAGC
* * ** * * **
7645 ATATTGGCACCTTTGTCATCTTTAAGTCTGATATTGTTGGCCTTGAATTAGCACATTGGCACCCT
1 ATATTGGCACCTTTATCATCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCACATTGAAACCCT
* * * * *
7710 TATCATCTTTAAGTCCAATGTTACTGGCCTTGAATTAGCA-TATTGGCACCTTTGTCATTTTTAA
66 TATCATCTTAAAGTCCAATGTCACTGGCCTTGAATCAGCACT-TTGGCACCTTTATCATGTTTAA
7774 ATGATATCGCTGGCCTTAAATCAAT
130 ATGATATCGCTGGCCTTAAATCAAT
* * * * *
7799 ATATTGGCACTTTTATCATTTTTAAGCCCAATGTTGCTGGCCTTGAATCAGTATATTGAAACCCT
1 ATATTGGCACCTTTATCATCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCACATTGAAACCCT
* ** *
7864 TATCATCTTAAAGTCTAATGTCGTTGGCCTTGAATCAGTACTTTGGCACCTTTATCATGTTTAA
66 TATCATCTTAAAGTCCAATGTCACTGGCCTTGAATCAGCACTTTGGCACCTTTATCATGTTTAA
7928 GTCTAATGTC
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
154 105 0.99
155 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (154 bp):
ATATTGGCACCTTTATCATCTTTAAGCCCAATATTGCTGGCCTTGAATCAGCACATTGAAACCCT
TATCATCTTAAAGTCCAATGTCACTGGCCTTGAATCAGCACTTTGGCACCTTTATCATGTTTAAA
TGATATCGCTGGCCTTAAATCAAT
Found at i:11392 original size:79 final size:79
Alignment explanation
Indices: 11266--11687 Score: 391
Period size: 79 Copynumber: 5.3 Consensus size: 79
11256 TGAAAATCGA
* * ** **
11266 GGTTGGAGTA-CCCCTGAGAAAAAAAATTTAATGTTTTGGAAGCAAAAACGAGGTTGGAGTATCC
1 GGTTGGAGTATCCCC-GAGATAAAAAATTTAATATTTTTAAAATAAAAACGAGGTTGGAGTATCC
* *** * *
11330 CTTTGGAAGTGATGG
65 CCTCAAAAATAATGG
** * * * *
11345 GGTTGGAGTATCCTTGATGGTGAAAAA-TTGATATTTTAAAAATAAAAACGAGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGA-GATAAAAAATTTAATATTTTTAAAATAAAAACGA-GGTTGGAGTATC
*** **
11409 CCCTTGGAAATAATAA
64 CCCTCAAAAATAATGG
* ** * * *
11425 GGTTAGAGTATCCCTAAGATAAAAAATTTAATAGTTTGAAAATAAAAATGAGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTAAAATAAAAACGAGGTTGGAGTATCCC
11490 CTCAAAAATAATGG
66 CTCAAAAATAATGG
* * * * * *
11504 GGTAGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAATGGGGCTGGAGTATCCC
1 GGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTAAAATAAAAACGAGGTTGGAGTATCCC
* *
11569 CTCAAAATTGATGG
66 CTCAAAAATAATGG
* * *
11583 GGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTAT-CC
1 GGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTAAAATAAAAACGAGGTTGGAGTATCCC
* *
11647 CTCGAAAATAATAG
66 CTCAAAAATAATGG
* * *
11661 GGTTAGAGTATCCCCAAGATGAAAAAT
1 GGTTGGAGTATCCCCGAGATAAAAAAT
11688 CGATATTTTT
Statistics
Matches: 286, Mismatches: 53, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
78 37 0.13
79 184 0.64
80 65 0.23
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTAAAATAAAAACGAGGTTGGAGTATCCC
CTCAAAAATAATGG
Found at i:11644 original size:158 final size:159
Alignment explanation
Indices: 11265--11687 Score: 437
Period size: 159 Copynumber: 2.7 Consensus size: 159
11255 GTGAAAATCG
* * * **
11265 AGGTTGGAGTA-CCCCTGAGAAAAAAAATTTAATGTTTTGGAAGCAAAAACGAGGTTGGAGTATC
1 AGGTTGGAGTATCCCC-GAGATAAAAAATTTAATATTTTTGAAATAAAAACGAGGTTGGAGTATC
* * * * * * * * *
11329 CCTTTGGAAGTGATGGGGTTGGAGTATCCTTGATGGTGAAAAA-TTGATATTTTAAAAATAAAAA
65 CCCTCGAAAATAATGGGGTAGGAGTATCCTCGA-GATGAAAAATTTAATATTTTAAAAATAAAAA
* **
11393 CGAGGGTTGGAGTATCCCCTTGGAAATAATA
129 CGAGGGCTGGAGTATCCCCTTCAAAATAATA
* ** * *
11424 AGGTTAGAGTATCCCTAAGATAAAAAATTTAATA-GTTTGAAAATAAAAATGAGGTTGGAGTATC
1 AGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTG-AAATAAAAACGAGGTTGGAGTATC
* * ** *
11488 CCCTCAAAAATAATGGGGTAGGAGTATCCTCGAGATAAAAAATTTAATATTTTTGAAATAAAAAT
65 CCCTCGAAAATAATGGGGTAGGAGTATCCTCGAGATGAAAAATTTAATATTTTAAAAATAAAAAC
* *
11553 G-GGGCTGGAGTATCCCC-TCAAAATTGATG
130 GAGGGCTGGAGTATCCCCTTCAAAA-TAATA
* * *
11582 GGGTTGGAGTATCCCCGAGATGAAAAATTTAATATTTTTGAAATAAAAACGGGGTTGGAGTAT-C
1 AGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTGAAATAAAAACGAGGTTGGAGTATCC
* * *
11646 CCTCGAAAATAATAGGGTTA-GAGTATCCCCAAGATGAAAAAT
66 CCTCGAAAATAAT-GGGGTAGGAGTATCCTCGAGATGAAAAAT
11688 CGATATTTTT
Statistics
Matches: 216, Mismatches: 42, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
157 36 0.17
158 83 0.38
159 94 0.44
160 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (159 bp):
AGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTTTGAAATAAAAACGAGGTTGGAGTATCC
CCTCGAAAATAATGGGGTAGGAGTATCCTCGAGATGAAAAATTTAATATTTTAAAAATAAAAACG
AGGGCTGGAGTATCCCCTTCAAAATAATA
Found at i:14169 original size:20 final size:21
Alignment explanation
Indices: 14144--14195 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
14134 ATTTTAGGCA
14144 TGTATCGATACATTCACT-TG
1 TGTATCGATACATTCACTATG
* *
14164 TGTATCGATACATTTACTATT
1 TGTATCGATACATTCACTATG
14185 TGTATCGATAC
1 TGTATCGATAC
14196 GAATTATAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCACTATG
Found at i:15630 original size:51 final size:52
Alignment explanation
Indices: 15562--15669 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
15552 AGATGTATTG
* ** *
15562 ATACATTGAAGAATGTATTGATACATTTGGGTC-AAAACCCATAATGTATCA
1 ATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATGTATCA
* * *
15613 ATACAATGAATAATGTATCAATACATTTGGGTCAAAAACCTAGAATGTATCG
1 ATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATGTATCA
15665 ATACA
1 ATACA
15670 TTTGGGTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 29 0.59
52 20 0.41
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (52 bp):
ATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATGTATCA
Found at i:15669 original size:32 final size:32
Alignment explanation
Indices: 15624--15704 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 32
15614 TACAATGAAT
*
15624 AATGTATCAATACATTTGGGTCAAAAAC-CTAG
1 AATGTATCGATACATTTGGGTCAAAAACAC-AG
15656 AATGTATCGATACATTTGGGTCAAAAACACAG
1 AATGTATCGATACATTTGGGTCAAAAACACAG
*
15688 AATATATCGATACATTT
1 AATGTATCGATACATTT
15705 TCTTTCTAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 45 0.98
33 1 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (32 bp):
AATGTATCGATACATTTGGGTCAAAAACACAG
Found at i:16982 original size:157 final size:154
Alignment explanation
Indices: 16754--17295 Score: 482
Period size: 157 Copynumber: 3.5 Consensus size: 154
16744 TCTCAGTTGT
* * * * * * * * *
16754 CCTAATAGACTTTAAAATGATCGTAAATGGGGTGAACCTATCCTAAATACACATCTTTGGCATAA
1 CCTAAAAGACTTAAAAAAGATCATAAATAGGATGAAACTATCCTAAATACCCACCTTTGGCATAA
* * * * * *
16819 AAGCATCTCGATGACAATCTAGAACTTGGGTCTAGAAAAATTATGAAAATGCCCCCATGGATATG
66 AAGCATCTCGATGACAATCTAGAACTAGGTTCTAGAAAAATTACGAAAATACCCCTATGG-TATA
* *
16884 CCTTCAACATGAAAATATCCTGGTAA
130 CCTTCAA-ATGAAAGTATCCTGATAA
* * *
16910 GCCCAAATGACTTAAAAAAGATCATAAATAGGATGAAACTATCCTAAATACCCACCTTTGACATA
1 -CCTAAAAGACTTAAAAAAGATCATAAATAGGATGAAACTATCCTAAATACCCACCTTTGGCATA
* * * * * * * *
16975 AAAGCATCTCCATGACGACCTAGGACTAAGTTCTA-AACAATTACAAAAATACCCTTATAGGTAT
65 AAAGCATCTCGATGACAATCTAGAACTAGGTTCTAGAAAAATTACGAAAATACCCCTAT-GGTAT
* * *
17039 ACTTTCCAGATGAAAGTAT-CTCGACAA
129 ACCTT-CAAATGAAAGTATCCT-GATAA
* * * ** *
17066 TCCTAAAAGACTTAAAAAAGATCATAAATAGAAT-AAACCTATCTTAAATACCTATATTTTGCAT
1 -CCTAAAAGACTTAAAAAAGATCATAAATAGGATGAAA-CTATCCTAAATACCCACCTTTGGCAT
* * * * * * *
17130 AAAAGCATCCCGATGATAATCTA-AGACTCGATTCTAGAATAATTACGCAAATACCCCTATAGTT
64 AAAAGCATCTCGATGACAATCTAGA-ACTAGGTTCTAGAAAAATTACGAAAATACCCCTAT-GGT
*
17194 ATACCTTCGAAATGAAAGTATCCCGATAA
127 ATACCTTC-AAATGAAAGTATCCTGATAA
* * * * *
17223 CTCTAAAGGACTTAAAAAGGATCATAAAT-GAGAGGAACCTATCCTAAATACCCACATTTGGCAT
1 C-CTAAAAGACTTAAAAAAGATCATAAATAG-GATGAAACTATCCTAAATACCCACCTTTGGCAT
17287 AAAAGCATC
64 AAAAGCATC
17296 CCGACAACAA
Statistics
Matches: 306, Mismatches: 68, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
155 5 0.02
156 114 0.37
157 184 0.60
158 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (154 bp):
CCTAAAAGACTTAAAAAAGATCATAAATAGGATGAAACTATCCTAAATACCCACCTTTGGCATAA
AAGCATCTCGATGACAATCTAGAACTAGGTTCTAGAAAAATTACGAAAATACCCCTATGGTATAC
CTTCAAATGAAAGTATCCTGATAA
Found at i:17367 original size:313 final size:313
Alignment explanation
Indices: 16788--17389 Score: 659
Period size: 313 Copynumber: 1.9 Consensus size: 313
16778 AAATGGGGTG
* * * *
16788 AACCTATCCTAAATACACATCTTTGGCATAAAAGCATCTCGATGACAATCTAGAACTTGGGTCTA
1 AACCTATCCTAAATACACATATTTGGCATAAAAGCATCCCGATGACAATCTAGAACTCGAGTCTA
* * * * * * *
16853 GAAAAATTATGAAAATGCCCCCATGGATATGCCTTCAACATGAAAATATCCTGGTAAGCCCAAAT
66 GAAAAATTACGAAAATACCCCCATAGATATACCTTCAACATGAAAATATCCCGATAAGCCCAAAG
* *
16918 GACTTAAAAAAGATCATAAATAGGATGAAACTATCCTAAATACCCACCTTTGACATAAAAGCATC
131 GACTTAAAAAAGATCATAAATAGGAGGAAACTATCCTAAATACCCACATTTGACATAAAAGCATC
** * * * * * *
16983 TCCATGACGACCTAGGACTAAGTTCTAAACAATTACAAAAATACCCTTATAGGTATACTTTCCAG
196 TCCACAACAAACTAGGACTAAGTCCTAAACAAATACAAAAATACCCTTATAGGTATACTTTCAAC
*
17048 ATGAAAGTATCTCGACAATCCTAAAAGACTTAAAAAAGATCATAAATAGAATA
261 ATGAAAGTATCCCGACAATCCTAAAAGACTTAAAAAAGATCATAAATAGAATA
* * * *
17101 AACCTATCTTAAATAC-CTATATTTTGCATAAAAGCATCCCGATGATAATCTA-AGACTCGATTC
1 AACCTATCCTAAATACAC-ATATTTGGCATAAAAGCATCCCGATGACAATCTAGA-ACTCGAGTC
* * * * * *
17164 TAGAATAATTACGCAAATACCCCTATAGTTATACCTTCGAA-ATGAAAGTATCCCGATAA-CTCT
64 TAGAAAAATTACGAAAATACCCCCATAGATATACCTTC-AACATGAAAATATCCCGATAAGC-CC
* * *
17227 AAAGGACTTAAAAAGGATCATAAAT-GAGAGGAACCTATCCTAAATACCCACATTTGGCATAAAA
127 AAAGGACTTAAAAAAGATCATAAATAG-GAGGAAACTATCCTAAATACCCACATTTGACATAAAA
* ** *
17291 GCATC-CCGACAACAAATTAGGACTTAA-TCCTATAA-AAATATGAAAATAACCC-TATGGGTAC
191 GCATCTCC-ACAACAAACTAGGAC-TAAGTCCTA-AACAAATACAAAAAT-ACCCTTATAGGT--
* *
17352 ATA-TTT-AACATGAAAGTATCCCGATAATCTTAAAAGAC
250 ATACTTTCAACATGAAAGTATCCCGACAATCCTAAAAGAC
17390 ACAAAAATAT
Statistics
Matches: 237, Mismatches: 41, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
312 6 0.03
313 214 0.90
314 14 0.06
315 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (313 bp):
AACCTATCCTAAATACACATATTTGGCATAAAAGCATCCCGATGACAATCTAGAACTCGAGTCTA
GAAAAATTACGAAAATACCCCCATAGATATACCTTCAACATGAAAATATCCCGATAAGCCCAAAG
GACTTAAAAAAGATCATAAATAGGAGGAAACTATCCTAAATACCCACATTTGACATAAAAGCATC
TCCACAACAAACTAGGACTAAGTCCTAAACAAATACAAAAATACCCTTATAGGTATACTTTCAAC
ATGAAAGTATCCCGACAATCCTAAAAGACTTAAAAAAGATCATAAATAGAATA
Found at i:18101 original size:165 final size:162
Alignment explanation
Indices: 17797--18274 Score: 500
Period size: 165 Copynumber: 2.9 Consensus size: 162
17787 ATTATTCATA
* * ** * * ** * *
17797 AAACTTTCTGAATTTACAAATTGGTCAGTACATAATTAAAACACAAAGTTAAGCATCAAATATAT
1 AAACTTTCTAAAATTACAAATTGGTCCTTATATAATTAAAACACAAAATTAAATATCCAACATAT
* * ** * * *
17862 TAAAATTAACAGCAAA-GTTCACATATAAAAGTCACAAGAAAGATTAGGCCAAGTAAC-TTTGGC
66 CAAAATCAACAAAAAATGATC-C--A-AAAA-TTACAAGAAAGATTTGGCCAAGT-ACTTTTGGC
*
17925 ATTCG-AACAAAATTTTTAATATTTACACTT-AAATCCCT
125 CTT-GAAACAAAATTTTTAATATTTACACTTAAAAT-CCT
* * * *** *
17963 AAGCTTTGTGAAATTACAAATTGGT-CTCTATATAATTAAAATGTAAAATTAAATATCCAAGATA
1 AAACTTTCTAAAATTACAAATTGGTCCT-TATATAATTAAAACACAAAATTAAATATCCAACATA
* * *
18027 TCGAAATCCACAAAAAAATTAGATCCAAAAATTACAAGAAAAATTTGGCCAAGTACTTTTGGCCT
65 TCAAAATCAAC-AAAAAA-T-GATCCAAAAATTACAAGAAAGATTTGGCCAAGTACTTTTGGCCT
* *
18092 TGAAACAAAATTTTTAATATTTATACTTAAAATTCT
127 TGAAACAAAATTTTTAATATTTACACTTAAAATCCT
* *
18128 AAACTTTCTAAAATTACAAATTGGTCCTTATATATTTAAAACACAAAATTAAATATCGAACATAT
1 AAACTTTCTAAAATTACAAATTGGTCCTTATATAATTAAAACACAAAATTAAATATCCAACATAT
**
18193 CAAAATCAACTCAAAATGATCCAAAAATTACAAGAAAGATTTGG-CAAGTACTTTTGGCCTTGAA
66 CAAAATCAACAAAAAATGATCCAAAAATTACAAGAAAGATTTGGCCAAGTACTTTTGGCCTTGAA
18257 ACAAAATTTTTAATATTT
131 ACAAAATTTTTAATATTT
18275 TTAAATTTAC
Statistics
Matches: 262, Mismatches: 41, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
161 38 0.15
162 26 0.10
163 1 0.00
164 7 0.03
165 115 0.44
166 66 0.25
167 5 0.02
169 1 0.00
170 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.31
Consensus pattern (162 bp):
AAACTTTCTAAAATTACAAATTGGTCCTTATATAATTAAAACACAAAATTAAATATCCAACATAT
CAAAATCAACAAAAAATGATCCAAAAATTACAAGAAAGATTTGGCCAAGTACTTTTGGCCTTGAA
ACAAAATTTTTAATATTTACACTTAAAATCCT
Found at i:20241 original size:154 final size:154
Alignment explanation
Indices: 20064--20478 Score: 446
Period size: 155 Copynumber: 2.7 Consensus size: 154
20054 ATTACATGAA
* * *
20064 AAAAATGC-AAAAGTCATAAAATAAATTGAA-TTTCCACAAATTGATTTAATATGAATTTA-ATA
1 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCA-AAATTGATTTAATATGAA-TTAGATA
* *
20126 AAAATATTTGATGAATTTTAAAAATTTTAAA-TTGAGAAAAATCTAGCCAAAGAAA-TTTACAAA
64 AAAATATTTGAAGAATTTTAAAAATTATAAACTT-AGAAAAATCTA-CCAAAGAAATTTTACAAA
* *
20189 GTAAAAAACTCTGTATCTTAGAAACAAC
127 GTAAAAAACTCTATATCTCAGAAACAAC
* * * * * **
20217 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAACTAATTTAACAAGAATTAGACAGC
1 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTAGATAAA
* * * * * **
20282 AATATTTTAAGAATTTTAGAAATTATAAACTTAGAAAAATCCCATCGAAGAAATTTTACGGAGTA
66 AATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAAT-CTACCAAAGAAATTTTACAAAGTA
* ** * **
20347 GAAAACTCTATATCTCAGTGATAGG
130 AAAAACTCTATATCTCAGAAACAAC
* * *
20372 AAAAATTCTAAAACTTATAAAATAAATTGAATTTTTCTAAATTGATCTAATATGAATTATG-TAA
1 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTA-GATAA
* *
20436 TAATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCT
65 AAATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCT
20479 TGTTAGAGAA
Statistics
Matches: 214, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
153 10 0.05
154 78 0.36
155 125 0.58
156 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (154 bp):
AAAAATTCTAAAACTCATAAAATAAATTGAATTTTTCAAAATTGATTTAATATGAATTAGATAAA
AATATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCTACCAAAGAAATTTTACAAAGTAA
AAAACTCTATATCTCAGAAACAAC
Found at i:20867 original size:36 final size:33
Alignment explanation
Indices: 20789--20880 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 33
20779 CAGCATTATC
*
20789 TTTC-AAGGCTAAGATAGAAAC-CTTTCTATTT
1 TTTCAAAGGCTAAGATAGAACCTCTTTCTATTT
**
20820 TTTCACGGGCTAAGATAGAACCTCTTTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAACCTCTTT--CTAT-TT
20856 TTTCAAAGGCTAAGATAGAACCTCT
1 TTTCAAAGGCTAAGATAGAACCTCT
20881 CAATCACTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.08
32 14 0.27
33 4 0.08
35 4 0.08
36 25 0.49
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAACCTCTTTCTATTT
Found at i:21318 original size:20 final size:20
Alignment explanation
Indices: 21272--21309 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
21262 GTTGGGCTCA
21272 ATGTATCGATAAAATTCACC
1 ATGTATCGATAAAATTCACC
21292 ATGTATCGATAAAATTCA
1 ATGTATCGATAAAATTCA
21310 TTATGTATCC
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:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATAAAATTCACC
Found at i:21538 original size:20 final size:21
Alignment explanation
Indices: 21513--21556 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
21503 GATACTTTGA
21513 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
21533 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
21555 AT
1 AT
21557 CTATACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:24660 original size:21 final size:21
Alignment explanation
Indices: 24636--24679 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
24626 TCTTTTCTCC
* * *
24636 TCTAATTCATTTATTTTCTTT
1 TCTAATCCACTTAATTTCTTT
24657 TCTAATCCACTTAATTTCTTT
1 TCTAATCCACTTAATTTCTTT
24678 TC
1 TC
24680 AAGAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.59
Consensus pattern (21 bp):
TCTAATCCACTTAATTTCTTT
Found at i:26332 original size:36 final size:33
Alignment explanation
Indices: 26249--26340 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 33
26239 CAACACTATC
*
26249 TTTC-AAGGCTAAGATAGAAAC-CTCTCTATTT
1 TTTCAAAGGCTAAGATAGAACCTCTCTCTATTT
**
26280 TTTCACGGGCTAAGATAGAACCTCTCTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAACCTCTCT--CTAT-TT
*
26316 TTTCAAAGGCTTAGATAGAACCTCT
1 TTTCAAAGGCTAAGATAGAACCTCT
26341 TCATCACTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
31 4 0.08
32 14 0.28
33 4 0.08
35 4 0.08
36 24 0.48
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAACCTCTCTCTATTT
Found at i:26796 original size:20 final size:20
Alignment explanation
Indices: 26771--26844 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
26761 GTTGGGCTCA
* *
26771 ATGTATTGATACAATTCACC
1 ATGTATCGATACAATTCAAC
*
26791 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCAAC
26811 ATGTATCGATACAATTCAAC
1 ATGTATCGATACAATTCAAC
26831 ATGTATCGATACAA
1 ATGTATCGATACAA
26845 GTGAGTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATTCAAC
Found at i:27043 original size:20 final size:21
Alignment explanation
Indices: 27018--27061 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
27008 GATACTTTGA
27018 ATTATTTTTA-CTTGAAAAAC
1 ATTATTTTTAGCTTGAAAAAC
27038 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTA-GCTTGAAAAAC
27060 AT
1 AT
27062 CTATACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTATTTTTAGCTTGAAAAAC
Found at i:30947 original size:96 final size:96
Alignment explanation
Indices: 30778--30954 Score: 248
Period size: 96 Copynumber: 1.8 Consensus size: 96
30768 TTCATCGGGG
* * * * *
30778 ATACTCCAACCCCATTTTTGAACTTGTCAAGATTATTTTTAATTTTACCCAATTTATTGTTATTG
1 ATACTCCAACCCCATTTTTGAACTTGTCAAAATCATTTTTAATTTTACCCAAATTATTATTATAG
30843 GGGACACTCCAACCCCATTATTTTCGAGGGA
66 GGGACACTCCAACCCCATTATTTTCGAGGGA
* * * * *
30874 ATACTCCAACCTCATTTTTGAATTTGTCAAAATCATTTTTACTTTTACCTAAATTATTATTGTCA
1 ATACTCCAACCCCATTTTTGAACTTGTCAAAATCATTTTTAATTTTACCCAAATTATTATTAT-A
30939 GGGG-CACTCCAACCCC
65 GGGGACACTCCAACCCC
30955 CATTCCTCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 66 0.94
97 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (96 bp):
ATACTCCAACCCCATTTTTGAACTTGTCAAAATCATTTTTAATTTTACCCAAATTATTATTATAG
GGGACACTCCAACCCCATTATTTTCGAGGGA
Found at i:42254 original size:14 final size:14
Alignment explanation
Indices: 42231--42265 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
42221 ATTGTCAACA
*
42231 AAATTATTGTCAAG
1 AAATTTTTGTCAAG
42245 AAATTTTTGTCAAG
1 AAATTTTTGTCAAG
*
42259 AACTTTT
1 AAATTTT
42266 GTCGAGAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (14 bp):
AAATTTTTGTCAAG
Found at i:42659 original size:32 final size:31
Alignment explanation
Indices: 42564--42805 Score: 163
Period size: 32 Copynumber: 7.7 Consensus size: 31
42554 CCAATGGACA
* *
42564 AACCTTCTTCAAAGCCCACACAAGTAGGTGGC
1 AACCTTTTTCAAAG-CCACACAAGTTGGTGGC
* * * * * * *
42596 AACCCTTTCCAATGCCCATAGAAGCTAGTGGC
1 AACCTTTTTCAAAG-CCACACAAGTTGGTGGC
*
42628 AGCCTTTTTCAAAGTCCACACAAGTTGGTGGC
1 AACCTTTTTCAAAG-CCACACAAGTTGGTGGC
* * * **
42660 GACC-CTTTCTAAAGCCGACATAAGTCAGTGGC
1 AACCTTTTTC-AAAGCC-ACACAAGTTGGTGGC
42692 AAGCCTTTTT-AAAGCCACACAAGTTGGTGGC
1 AA-CCTTTTTCAAAGCCACACAAGTTGGTGGC
* * *
42723 AACC-CTTTCAAAGCCCACACAAGCTGGTGGT
1 AACCTTTTTCAAAG-CCACACAAGTTGGTGGC
**
42754 AACCTTTCTT-AAAGCCTACACAAGTCAGTGGC
1 AACCTTT-TTCAAAGCC-ACACAAGTTGGTGGC
*
42786 AACC-CTTTCAAAAGCC-CACA
1 AACCTTTTTC-AAAGCCACACA
42806 TGAGTTGATG
Statistics
Matches: 161, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
29 3 0.02
30 12 0.07
31 42 0.26
32 97 0.60
33 4 0.02
34 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (31 bp):
AACCTTTTTCAAAGCCACACAAGTTGGTGGC
Found at i:42728 original size:63 final size:63
Alignment explanation
Indices: 42574--42806 Score: 267
Period size: 64 Copynumber: 3.7 Consensus size: 63
42564 AACCTTCTTC
* * * *
42574 AAAGCCCACACAAGTAGGTGGCAACCCTTTCCAATGCCCATAGAAGCTAGTGGC-AGCCTTTTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTT-CAAAGCCCACATAAGCTAGTGGCAAGCCTTTTT
* * *
42637 CAAAGTCCACACAAGTTGGTGGCGACCCTTTCTAAAGCCGACATAAG-TCAGTGGCAAGCCTTTT
1 -AAAGCCCACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACATAAGCT-AGTGGCAAGCCTTTT
42701 T
63 T
* * *
42702 AAAG-CCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACACAAGCTGGTGGTAA-CCTTTCTT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACATAAGCTAGTGGCAAGCCTTT-TT
* **
42764 AAAGCCTACACAAGTCAGTGGCAACCCTTTCAAAAGCCCACAT
1 AAAGCCCACACAAGTTGGTGGCAACCCTTTC-AAAGCCCACAT
42807 GAGTTGATGG
Statistics
Matches: 146, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
61 5 0.03
62 24 0.16
63 51 0.35
64 57 0.39
65 9 0.06
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (63 bp):
AAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAGCCCACATAAGCTAGTGGCAAGCCTTTTT
Found at i:42818 original size:32 final size:32
Alignment explanation
Indices: 42574--42834 Score: 162
Period size: 32 Copynumber: 8.2 Consensus size: 32
42564 AACCTTCTTC
* * *
42574 AAAGCCCACACAAGTAGGTGGCAACCCTTTCC
1 AAAGCCCACACAAGTTGATGGCAACCCTTTCT
* * * * * *
42606 AATGCCCATAGAAGCT-AGTGGC-AGCCTTTTT
1 AAAGCCCACACAAGTTGA-TGGCAACCCTTTCT
* * *
42637 CAAAGTCCACACAAGTTGGTGGCGACCCTTTCT
1 -AAAGCCCACACAAGTTGATGGCAACCCTTTCT
* * * * *
42670 AAAGCCGACATAAG-TCAGTGGCAAGCCTTTTT
1 AAAGCCCACACAAGTTGA-TGGCAACCCTTTCT
*
42702 AAAG-CCACACAAGTTGGTGGCAACCCTTTC-
1 AAAGCCCACACAAGTTGATGGCAACCCTTTCT
* * *
42732 AAAGCCCACACAAGCTGGTGGTAA-CCTTTCTT
1 AAAGCCCACACAAGTTGATGGCAACCCTTTC-T
* * *
42764 AAAGCCTACACAAG-TCAGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTTGA-TGGCAACCCTTTCT
** *
42796 AAAGCCCACATGAGTTGATGGCATCTCCTTT-T
1 AAAGCCCACACAAGTTGATGGCAAC-CCTTTCT
42828 -AAGCCCA
1 AAAGCCCA
42835 ATGTCCTTGG
Statistics
Matches: 172, Mismatches: 44, Indels: 27
0.71 0.18 0.11
Matches are distributed among these distances:
30 10 0.06
31 50 0.29
32 92 0.53
33 20 0.12
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGATGGCAACCCTTTCT
Found at i:42818 original size:126 final size:128
Alignment explanation
Indices: 42574--42806 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 128
42564 AACCTTCTTC
* * * *
42574 AAAGCCCACACAAGTAGGTGGCAACCCTTTCCAATGCCCATAGAAGCTAGTGGCAGCCTTTTTCA
1 AAAGCCCACACAAGTAGGTGGCAACCCTTTCCAAAGCCCACACAAGCTAGTGGCAACCTTTTTCA
** * * *
42639 AAGTCCACACAAGTTGGTGGCGACCCTTTCTAAAGCCGACATAAGTCAGTGGCAAGCCTTTTT
66 AAGTCCACACAAGTCAGTGGCAACCCTTTCAAAAGCCCACATAAGTCAGTGGCAAGCCTTTTT
* * *
42702 AAAG-CCACACAAGTTGGTGGCAACCCTTT-CAAAGCCCACACAAGCTGGTGGTAACCTTTCTT-
1 AAAGCCCACACAAGTAGGTGGCAACCCTTTCCAAAGCCCACACAAGCTAGTGGCAACCTTT-TTC
42764 AAAG-CCTACACAAGTCAGTGGCAACCCTTTCAAAAGCCCACAT
65 AAAGTCC-ACACAAGTCAGTGGCAACCCTTTCAAAAGCCCACAT
42807 GAGTTGATGG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
125 2 0.02
126 59 0.65
127 26 0.29
128 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (128 bp):
AAAGCCCACACAAGTAGGTGGCAACCCTTTCCAAAGCCCACACAAGCTAGTGGCAACCTTTTTCA
AAGTCCACACAAGTCAGTGGCAACCCTTTCAAAAGCCCACATAAGTCAGTGGCAAGCCTTTTT
Found at i:42879 original size:43 final size:43
Alignment explanation
Indices: 42832--42915 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
42822 CCTTTTAAGC
*
42832 CCAATGTCCTTGGACTTGAATCAGCACATTGGCACCTTTATGT
1 CCAATATCCTTGGACTTGAATCAGCACATTGGCACCTTTATGT
* * * *
42875 CCAATATCGTTGGCCTTGAATTAGCATATTGGCACCTTTAT
1 CCAATATCCTTGGACTTGAATCAGCACATTGGCACCTTTAT
42916 CATCCTTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (43 bp):
CCAATATCCTTGGACTTGAATCAGCACATTGGCACCTTTATGT
Found at i:43059 original size:52 final size:54
Alignment explanation
Indices: 42926--43267 Score: 243
Period size: 52 Copynumber: 6.6 Consensus size: 54
42916 CATCCTTCTT
**
42926 ATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--C--C-ATC
1 ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
* * * * * *
42975 ATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCA-TCTT-TAAC
1 ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
* *
43027 AT-TTCTAAGCCCAATGTCGCTAGCCTTGAATCAACACATTGGCATTCTTC--TC
1 ATCTT-TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
* * * * * * *
43079 ATCTTTAAGTCTAATGTCACTGCCCGTGAATCAGCACATTGACATTCTTC-GT-
1 ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
* * *
43131 ATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACAT-TTCT-T-
1 ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-TTCTTCTATC
** * * ** *
43183 ATCTTTAAATCCAATGAT-GCTAGCCTTGAATCAGCTCGCTGGCACTCTT-TATC
1 ATCTTTAAGCCCAATG-TCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
* * * *
43236 TTCTTTAAGTCCAGTG-CTGCAGGCCTTGAATC
1 ATCTTTAAGCCCAATGTC-GCTGGCCTTGAATC
43268 TGCATACTGG
Statistics
Matches: 231, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
49 39 0.17
50 1 0.00
51 4 0.02
52 153 0.66
53 34 0.15
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (54 bp):
ATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTATC
Found at i:43197 original size:156 final size:153
Alignment explanation
Indices: 42920--43215 Score: 364
Period size: 156 Copynumber: 1.9 Consensus size: 153
42910 CTTTATCATC
* * * * * * *
42920 CTTCTTATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGT
1 CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACACCATCATCTTTAAGC
* * *
42985 CCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAGCCCAATG-TCGCTA
66 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAACCCAATGAT-GCTA
43049 GCCTTGAATCAACACATTGGCATT
130 GCCTTGAATCAACACATTGGCATT
* * *
43073 CTTCTCATCTTTAAGTCTAATGTCACTGCCCGTGAATCAGCACATTGACATTCTTCGTATCTTTA
1 CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACA-CCATC--ATCTTTA
*** *
43138 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTTCTTATCTT-TAAATCCAATGAT
63 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTTAACAT-TTCTAAACCCAATGAT
43201 GCTAGCCTTGAATCA
126 GCTAGCCTTGAATCA
43216 GCTCGCTGGC
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
153 43 0.36
154 3 0.03
155 1 0.01
156 70 0.58
157 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (153 bp):
CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACACCATCATCTTTAAGC
CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAACCCAATGATGCTAG
CCTTGAATCAACACATTGGCATT
Found at i:43213 original size:104 final size:101
Alignment explanation
Indices: 42920--43217 Score: 279
Period size: 104 Copynumber: 2.9 Consensus size: 101
42910 CTTTATCATC
**
42920 CTTCTTATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCA--TC-ATCTTTA
1 CTTC-TATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CATTTCTATCTTTA
* * * *
42982 AGTCCGAT-ATCGTTGGCCTTGAATCAGCATATTGGCAT
64 AGTCCAATGATCGCT-GCCTTGAATCAGCACATTGACAT
* * * *
43020 CTT-TAACATTTCTAAGCCCAATGTCGCTAGCCTTGAATCAACACATTGGCA-TTCTTCTCATCT
1 CTTCTATC--TT-TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAT-TTCT-ATCT
* * *
43083 TTAAGTCTAATG-TCACTGCCCGTGAATCAGCACATTGACATT
61 TTAAGTCCAATGATCGCTG-CCTTGAATCAGCACATTGACA-T
* *
43125 CTTCGTATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTTCTTATCTTTA
1 CTTC-TATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTTC-TATCTTTA
*
43190 AATCCAATGAT-GCTAGCCTTGAATCAGC
64 AGTCCAATGATCGCT-GCCTTGAATCAGC
43218 TCGCTGGCAC
Statistics
Matches: 158, Mismatches: 23, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
98 3 0.02
100 5 0.03
101 35 0.22
102 2 0.01
103 1 0.01
104 99 0.63
105 10 0.06
107 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (101 bp):
CTTCTATCTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTTCTATCTTTAAG
TCCAATGATCGCTGCCTTGAATCAGCACATTGACAT
Found at i:43226 original size:156 final size:153
Alignment explanation
Indices: 42920--43248 Score: 358
Period size: 156 Copynumber: 2.1 Consensus size: 153
42910 CTTTATCATC
* * * * * * *
42920 CTTCTTATCTTTAATTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCATCATCTTTAAGT
1 CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACACCATCATCTTTAAGC
* * *
42985 CCGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAGCCCAATGTCGCTAG
66 CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAACCCAATGTCGCTAG
* *
43050 CCTTGAATCAACACATTGGCATT
131 CCTTGAATCAACACACTGGCACT
* * *
43073 CTTCTCATCTTTAAGTCTAATGTCACTGCCCGTGAATCAGCACATTGACATTCTTCGTATCTTTA
1 CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACA-CCATC--ATCTTTA
*** *
43138 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTTCTTATCTT-TAAATCCAATGAT
63 AGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TTTAACAT-TTCTAAACCCAATG-T
* * *
43201 -GCTAGCCTTGAATCAGCTCGCTGGCACT
125 CGCTAGCCTTGAATCAACACACTGGCACT
* *
43229 CTTTATCTTCTTTAAGTCCA
1 C-TTCTCATCTTTAAGTCCA
43249 GTGCTGCAGG
Statistics
Matches: 144, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
153 43 0.30
154 3 0.02
155 1 0.01
156 79 0.55
157 18 0.12
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (153 bp):
CTTCTCATCTTTAAGTCCAATGTCACTGCCCGTGAATCAGCACATTGACACCATCATCTTTAAGC
CCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTAACATTTCTAAACCCAATGTCGCTAG
CCTTGAATCAACACACTGGCACT
Found at i:43278 original size:53 final size:53
Alignment explanation
Indices: 43130--43283 Score: 140
Period size: 53 Copynumber: 2.9 Consensus size: 53
43120 ACATTCTTCG
** * *
43130 TATCTTTAAGCCCAAT-ATCGCT-GGCCTTGAATCAGCATATTGGCACATTTCT
1 TATCTTTAAATCCAATGAT-GCTAGGCCTTGAATCAGCATACTGGCACATTTAT
* *
43182 TATCTTTAAATCCAATGATGCTA-GCCTTGAATCAGC-TCGCTGGCACTCTTTAT
1 TATCTTTAAATCCAATGATGCTAGGCCTTGAATCAGCAT-ACTGGCAC-ATTTAT
* * * *
43235 CT-TCTTTAAGTCCAGTGCTGC-AGGCCTTGAATCTGCATACTGGCACATT
1 -TATCTTTAAATCCAATGATGCTAGGCCTTGAATCAGCATACTGGCACATT
43284 GCAAAACACT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
51 1 0.01
52 39 0.47
53 41 0.49
54 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
TATCTTTAAATCCAATGATGCTAGGCCTTGAATCAGCATACTGGCACATTTAT
Found at i:43884 original size:51 final size:51
Alignment explanation
Indices: 43821--43955 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 51
43811 TTTTACTGAT
* * *
43821 TGTATCGATACATTATTCATTATACT-GATACATTCTAGTTTTTTACCTAGA
1 TGTATCGATACATTATTCACTATA-TGGATACATTCTAGGTTTTTACCCAGA
* * *
43872 TGTATCGATACATTCTTCACTGTATGGATACATTCTGGGTTTTTACCCAGA
1 TGTATCGATACATTATTCACTATATGGATACATTCTAGGTTTTTACCCAGA
* * * * * *
43923 TGTATCAATGCATTCTTCAATGTATCGATACAT
1 TGTATCGATACATTATTCACTATATGGATACAT
43956 GCAAGCAAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 1 0.01
51 72 0.99
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (51 bp):
TGTATCGATACATTATTCACTATATGGATACATTCTAGGTTTTTACCCAGA
Found at i:45061 original size:18 final size:18
Alignment explanation
Indices: 45040--45076 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45030 TAGCATGGAT
45040 TTAAGATTTTCATTAAAC
1 TTAAGATTTTCATTAAAC
45058 TTAAGATTTTCATTAAAC
1 TTAAGATTTTCATTAAAC
45076 T
1 T
45077 AACACTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TTAAGATTTTCATTAAAC
Found at i:46324 original size:95 final size:95
Alignment explanation
Indices: 46161--46358 Score: 288
Period size: 95 Copynumber: 2.1 Consensus size: 95
46151 CATTGGGGAT
* *
46161 ACTCCAACCCCATTATTTCGAGGGGATACTCCAACCCCATTTTTAAACTTATCAAGATCATTTTT
1 ACTCCAACCCCATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATCATTTTT
*
46226 ACTTTTACCTAACTTATTATTGTCAGGGGC
66 ACTTTTACCTAAATTATTATTGTCAGGGGC
* * * * * *
46256 ACTCCAACCCTATTATTCCGAAGGGATACTCCAACCTCGTTTTTGAATTTGTCAAGATCATTTTT
1 ACTCCAACCCCATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATCATTTTT
* *
46321 ACTTTTACCTAAATTATTGTTGTCGGGGGC
66 ACTTTTACCTAAATTATTATTGTCAGGGGC
*
46351 ACCCCAAC
1 ACTCCAAC
46359 TACATTCCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.35
Consensus pattern (95 bp):
ACTCCAACCCCATTATTCCGAAGGGATACTCCAACCCCATTTTTAAACTTATCAAGATCATTTTT
ACTTTTACCTAAATTATTATTGTCAGGGGC
Found at i:46394 original size:95 final size:94
Alignment explanation
Indices: 46172--46394 Score: 268
Period size: 95 Copynumber: 2.3 Consensus size: 94
46162 CTCCAACCCC
*
46172 ATTATTTCGAGGGGATACTCCAACCCCATTTTTAAACTTATCAAGATCATTTTTACTTTTACCTA
1 ATTA-TTCGAGGGGATACTCCAACCTCATTTTTAAACTTATCAAGATCATTTTTACTTTTACCTA
* * *
46237 ACTTATTATTGTCAGGGGCACTCCAACCCT
65 AATTATTATTGTCAGGGGCACCCCAACACT
* * * * *
46267 ATTATTCCGAAGGGATACTCCAACCTCGTTTTTGAATTTGTCAAGATCATTTTTACTTTTACCTA
1 ATTATT-CGAGGGGATACTCCAACCTCATTTTTAAACTTATCAAGATCATTTTTACTTTTACCTA
* *
46332 AATTATTGTTGTCGGGGGCACCCCAACTAC-
65 AATTATTATTGTCAGGGGCACCCCAAC-ACT
* * * *
46362 ATTCCTTCGAGGGGACACTTCATCCTCATTTTT
1 ATT-ATTCGAGGGGATACTCCAACCTCATTTTT
46395 TAGCCAAAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
94 2 0.02
95 103 0.95
96 3 0.03
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (94 bp):
ATTATTCGAGGGGATACTCCAACCTCATTTTTAAACTTATCAAGATCATTTTTACTTTTACCTAA
ATTATTATTGTCAGGGGCACCCCAACACT
Found at i:49195 original size:13 final size:13
Alignment explanation
Indices: 49177--49202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49167 CAATTTTTTG
49177 TGTATCGATACAT
1 TGTATCGATACAT
49190 TGTATCGATACAT
1 TGTATCGATACAT
49203 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49214 original size:32 final size:33
Alignment explanation
Indices: 49157--49220 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
49147 TACAAGCCAA
**
49157 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
49190 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
49221 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:51030 original size:21 final size:21
Alignment explanation
Indices: 51004--51053 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
50994 TAATACTAAC
51004 TCATCAAATGCATCTTGTAAT
1 TCATCAAATGCATCTTGTAAT
51025 TCATCAAATGCATCTTGTAAT
1 TCATCAAATGCATCTTGTAAT
51046 TCATCAAA
1 TCATCAAA
51054 AGTGTAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (21 bp):
TCATCAAATGCATCTTGTAAT
Found at i:53030 original size:13 final size:13
Alignment explanation
Indices: 53012--53037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53002 CAATTTTTTG
53012 TGTATCGATACAT
1 TGTATCGATACAT
53025 TGTATCGATACAT
1 TGTATCGATACAT
53038 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:53049 original size:32 final size:33
Alignment explanation
Indices: 52992--53055 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
52982 TACAAGCCAA
**
52992 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
53025 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
53056 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:55218 original size:26 final size:26
Alignment explanation
Indices: 55189--55253 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
55179 AATAGTACCC
55189 ATGTATCGATACTGAATATCCATACA
1 ATGTATCGATACTGAATATCCATACA
*
55215 ATGTATCGATACTGAGTATCCATACA
1 ATGTATCGATACTGAATATCCATACA
*
55241 ATGTATTGATACT
1 ATGTATCGATACT
55254 AAGAACATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (26 bp):
ATGTATCGATACTGAATATCCATACA
Found at i:55246 original size:13 final size:13
Alignment explanation
Indices: 55205--55246 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
55195 CGATACTGAA
55205 TATCCATACAATG
1 TATCCATACAATG
* *
55218 TATCGATACTGA-G
1 TATCCATAC-AATG
55231 TATCCATACAATG
1 TATCCATACAATG
55244 TAT
1 TAT
55247 TGATACTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (13 bp):
TATCCATACAATG
Found at i:59265 original size:52 final size:52
Alignment explanation
Indices: 59203--59344 Score: 137
Period size: 52 Copynumber: 2.8 Consensus size: 52
59193 TGCCATGTGT
**
59203 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGG-CCAAGATGCAAATATGC
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAAG-TGCAAATATGC
* * * * ** * *
59255 TGATTTAAGGCTAGCGATATTGGACAT-AAGAAAGAAAAATGTGCCAATATGT
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAA-GTGCAAATATGC
**
59307 TGATTCAAGGCCAATGACATTGGACTTAAAGAT-GAAAA
1 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAA
59345 GAATGAGAAA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
51 5 0.07
52 60 0.86
53 5 0.07
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (52 bp):
TGATTCAAGGCCAGCGACATTGGACTTAAAGATGGAAAAAGTGCAAATATGC
Found at i:59464 original size:52 final size:52
Alignment explanation
Indices: 59386--59485 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
59376 AGAGAAAGAA
* *
59386 AAAGGTGTCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAAATGGT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTAAAAATGGT
* *
59438 AAAGGTGCCAATATGCTAATTCAAGGCCAATGATATTGGGCTTAAAAA
1 AAAGGTGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTAAAAA
59486 CGAAGGTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTAAAAATGGT
Found at i:59534 original size:58 final size:52
Alignment explanation
Indices: 59394--59538 Score: 155
Period size: 52 Copynumber: 2.7 Consensus size: 52
59384 AAAAAGGTGT
* *
59394 CAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAAATGGTAAAGGTGC
1 CAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAAAAGGTAAAGATGC
* * * *
59446 CAATATGCTAATTCAAGGCCAATGATATTGGGCTTAAAAACGAAGGTCTAATGAATGC
1 CAATGTGCTAATTCAAGGCCAACGACATTGGGCTT-AAAA--AAGG--TAAAG-ATGC
* * *
59504 CAATGTGTTGATTCAAGGCCAACAACATTGGGCTT
1 CAATGTGCTAATTCAAGGCCAACGACATTGGGCTT
59539 GGAAAAGGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
52 32 0.43
53 4 0.05
55 3 0.04
57 4 0.05
58 32 0.43
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (52 bp):
CAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAAAAGGTAAAGATGC
Found at i:59592 original size:33 final size:31
Alignment explanation
Indices: 59548--59623 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
59538 TGGAAAAGGA
*
59548 TGCCACCAACTTATATGGGCCTTGAGGAAGGGT
1 TGCCACTAACTTATATGGG-CTT-AGGAAGGGT
* * *
59581 TGCCACTAACTTGTGTGGGCTTTGGAAGGGT
1 TGCCACTAACTTATATGGGCTTAGGAAGGGT
59612 TGCCACTAACTT
1 TGCCACTAACTT
59624 GTGTAGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 20 0.51
32 3 0.08
33 16 0.41
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (31 bp):
TGCCACTAACTTATATGGGCTTAGGAAGGGT
Found at i:59611 original size:31 final size:31
Alignment explanation
Indices: 59573--59702 Score: 136
Period size: 31 Copynumber: 4.2 Consensus size: 31
59563 TGGGCCTTGA
59573 GGAAGGGTTGCCACTAACTTGTGTGGGCTTT
1 GGAAGGGTTGCCACTAACTTGTGTGGGCTTT
* *
59604 GGAAGGGTTGCCACTAACTTGTGTAGGTTTT
1 GGAAGGGTTGCCACTAACTTGTGTGGGCTTT
* * *
59635 GGAAGGTTTGCCA-TCAATTTGTATGGGCTTT
1 GGAAGGGTTGCCACT-AACTTGTGTGGGCTTT
** ** * *
59666 ACAAGGGTTGCCACCGATTTGTGTGGCCTTT
1 GGAAGGGTTGCCACTAACTTGTGTGGGCTTT
*
59697 AGAAGG
1 GGAAGG
59703 AGAAGGTGCC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
30 1 0.01
31 81 0.99
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.33
Consensus pattern (31 bp):
GGAAGGGTTGCCACTAACTTGTGTGGGCTTT
Found at i:59702 original size:62 final size:63
Alignment explanation
Indices: 59548--59702 Score: 145
Period size: 62 Copynumber: 2.5 Consensus size: 63
59538 TGGAAAAGGA
* * * * * **
59548 TGCCACCAACTTATATGGGCCTTGAGGAAGGGTTGCCACTAACTTGTGTGGGCTTTGGAAGGGT
1 TGCCACCAACTTGTGTAGGCCTTTA-GAAGGGTTGCCACTAACTTGTATGGGCTTTACAAGGGT
* * * * *
59612 TGCCACTAACTTGTGTAGG-TTTTGGAAGGTTTGCCA-TCAATTTGTATGGGCTTTACAAGGGT
1 TGCCACCAACTTGTGTAGGCCTTTAGAAGGGTTGCCACT-AACTTGTATGGGCTTTACAAGGGT
* *
59674 TGCCACCGATTTGTGT-GGCCTTTAGAAGG
1 TGCCACCAACTTGTGTAGGCCTTTAGAAGG
59703 AGAAGGTGCC
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
61 3 0.04
62 52 0.72
63 2 0.03
64 15 0.21
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.32
Consensus pattern (63 bp):
TGCCACCAACTTGTGTAGGCCTTTAGAAGGGTTGCCACTAACTTGTATGGGCTTTACAAGGGT
Found at i:61960 original size:20 final size:20
Alignment explanation
Indices: 61935--62060 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
61925 TTTTACCCAG
61935 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
61955 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
61975 ATGTATCGATACATTCTATCTTTTTACCCTG
1 ATGTATCGAT--A--C-A--TTTTT---C-A
62006 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
62026 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
62046 ATGTATCGATACATT
1 ATGTATCGATACATT
62061 CTGTCTTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
20 58 0.70
21 1 0.01
22 1 0.01
24 6 0.07
25 1 0.01
26 1 0.01
27 4 0.05
29 1 0.01
31 10 0.12
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:62040 original size:71 final size:71
Alignment explanation
Indices: 61924--62090 Score: 316
Period size: 71 Copynumber: 2.4 Consensus size: 71
61914 GAAAGTCACA
61924 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
61989 TCTATC
66 TCTATC
*
61995 TTTTTACCCTGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
*
62060 TCTGTC
66 TCTATC
62066 TTTTTACCCAGATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACAT
62091 CTAGTTAAAA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (71 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTATC
Done.