Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2644
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: 180694
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1004 original size:13 final size:13
Alignment explanation
Indices: 986--1024 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
976 ATAATCACCC
*
986 TGTATCGATACAG
1 TGTATCGATACAA
999 TGTATCGATACAA
1 TGTATCGATACAA
1012 TGTATCGATACAA
1 TGTATCGATACAA
1025 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1035 original size:20 final size:20
Alignment explanation
Indices: 1010--1088 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1000 GTATCGATAC
1010 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1030 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1055 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1075 CATGTATCGATACA
1 AATGTATCGATACA
1089 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:3127 original size:15 final size:15
Alignment explanation
Indices: 3107--3137 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3097 ATTTCGTTTG
*
3107 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3122 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3137 G
1 G
3138 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:7217 original size:13 final size:13
Alignment explanation
Indices: 7199--7224 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7189 CAATTTTTTG
7199 TGTATCGATACAT
1 TGTATCGATACAT
7212 TGTATCGATACAT
1 TGTATCGATACAT
7225 ACTTAATGTA
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:7309 original size:20 final size:20
Alignment explanation
Indices: 7284--7356 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7274 CAACTTTTTT
7284 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
7304 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
7325 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
7345 ATGTATCGATAC
1 ATGTATCGATAC
7357 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:7322 original size:41 final size:41
Alignment explanation
Indices: 7263--7356 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
7253 CTGCCAAGAA
*
7263 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
7304 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
7345 ATGTATCGATAC
1 ATGTATCGATAC
7357 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:7338 original size:21 final size:21
Alignment explanation
Indices: 7263--7338 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
7253 CTGCCAAGAA
* *
7263 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
7284 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
7304 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
7325 ATGTATCGATACAT
1 ATGTATCGATACAT
7339 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:11726 original size:58 final size:58
Alignment explanation
Indices: 11622--11731 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
11612 CTTGTTTGTA
* * ** * *
11622 ATTTTAGTTATTTTCCATGATTTAGGAATTTTTATATCATTCCATGCATTTTAATGTT
1 ATTTTAGATATTTTCCATGACTTAGGAATCATTACATAATTCCATGCATTTTAATGTT
* * *
11680 ATTTTAGATATTTTCCATGACTTAGGGATCATTACGTAATTTCATGCATTTT
1 ATTTTAGATATTTTCCATGACTTAGGAATCATTACATAATTCCATGCATTTT
11732 TAGGTCATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (58 bp):
ATTTTAGATATTTTCCATGACTTAGGAATCATTACATAATTCCATGCATTTTAATGTT
Found at i:14242 original size:6 final size:6
Alignment explanation
Indices: 14231--14275 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
14221 CTTGACCATT
* * *
14231 AGCCCA AGCCCA ATCCCA AGCCCA AGCCCA AGCCTA AGCCTA AGC
1 AGCCCA AGCCCA AGCCCA AGCCCA AGCCCA AGCCCA AGCCCA AGC
14276 TCGGCTTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.44, G:0.16, T:0.07
Consensus pattern (6 bp):
AGCCCA
Found at i:18927 original size:78 final size:77
Alignment explanation
Indices: 18837--19154 Score: 323
Period size: 79 Copynumber: 4.1 Consensus size: 77
18827 GGTCGGAGTG
* *
18837 CCCCTTAGAAATAACGGGGTTGGAGTATCCCAATGGTAGAAAATCGATGTTTTAGAAATAAAATC
1 CCCCTCAGAAATAACGGGGTTGGAGTATCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAATC
18902 GGGATTGGAGTAT
66 GGG-TTGGAGTAT
* * * ** **
18915 CCCCTCAGAAATAACGGGGTTGGGGCATCCCCGATTATGGAAAATCGATGTTTTAGAAATAAAGC
1 CCCCTCAGAAATAACGGGGTTGGAGTAT-CCCAATGGTGGAAAATCGATGTTTTAGAAATAAAAT
*
18980 CAGGGGTGGAGTAT
65 C-GGGTTGGAGTAT
* * * * * * * * *
18994 CCCCT-TGAAAATAATGGGATTGGAGTATCCCGATAGTGGGAAATGGGTGTTTTGGAAATAAAAT
1 CCCCTCAG-AAATAACGGGGTTGGAGTATCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAAT
*
19058 TGAGGTTGGAGTAT
65 CG-GGTTGGAGTAT
* * * * * * *
19072 CCTCTCAGAAATAACGGGGTCGAAATATCCTCAATGGTGGAAAATGGGTGTTTTGGAAATAAAAT
1 CCCCTCAGAAATAACGGGGTTGGAGTATCC-CAATGGTGGAAAATCGATGTTTTAGAAATAAAAT
19137 CGGGGTTGGAGTAT
65 C-GGGTTGGAGTAT
19151 CCCC
1 CCCC
19155 GAATGTGGAA
Statistics
Matches: 196, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 85 0.43
79 106 0.54
80 4 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (77 bp):
CCCCTCAGAAATAACGGGGTTGGAGTATCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAATC
GGGTTGGAGTAT
Found at i:19113 original size:157 final size:157
Alignment explanation
Indices: 18837--19154 Score: 363
Period size: 157 Copynumber: 2.0 Consensus size: 157
18827 GGTCGGAGTG
* *
18837 CCCCTTAGAAATAACGGGGTTGGAGTATCCCAATGGTAGAAAATCGATGTTTTAGAAATAAAATC
1 CCCCTTAGAAATAACGGGATTGGAGTATCCCAATAGTAGAAAATCGATGTTTTAGAAATAAAATC
* *** * *
18902 GGGATTGGAGTATCCCCTCAGAAATAACGGGGTTGGGGCATCCCCGATTATGGAAAATCGATGTT
66 GGGATTGGAGTATCCCCTCAGAAATAACGGGGTCGAAACATCCCCAATGATGGAAAATCGATGTT
*
18967 TTAGAAATAAAGCCAGGGG-TGGAGTAT
131 TTAGAAATAAAACC-GGGGTTGGAGTAT
* * * * * * *
18994 CCCCTT-GAAAATAATGGGATTGGAGTATCCCGATAGTGGGAAATGGGTGTTTTGGAAATAAAAT
1 CCCCTTAG-AAATAACGGGATTGGAGTATCCCAATAGTAGAAAATCGATGTTTTAGAAATAAAAT
* * * * * * *
19058 TGAGG-TTGGAGTATCCTCTCAGAAATAACGGGGTCGAAATATCCTCAATGGTGGAAAATGGGTG
65 CG-GGATTGGAGTATCCCCTCAGAAATAACGGGGTCGAAACATCCCCAATGATGGAAAATCGATG
* *
19122 TTTTGGAAATAAAATCGGGGTTGGAGTAT
129 TTTTAGAAATAAAACCGGGGTTGGAGTAT
19151 CCCC
1 CCCC
19155 GAATGTGGAA
Statistics
Matches: 133, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
156 5 0.04
157 126 0.95
158 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (157 bp):
CCCCTTAGAAATAACGGGATTGGAGTATCCCAATAGTAGAAAATCGATGTTTTAGAAATAAAATC
GGGATTGGAGTATCCCCTCAGAAATAACGGGGTCGAAACATCCCCAATGATGGAAAATCGATGTT
TTAGAAATAAAACCGGGGTTGGAGTAT
Found at i:19152 original size:51 final size:51
Alignment explanation
Indices: 19108--19205 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
19098 ATCCTCAATG
* * *
19108 GTGGAAAATGGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCGAAT
1 GTGGAAAATGGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCGAAT
* *
19159 GTGGAAAATTGATGTTTTAGAAATAAAGTCGGGGTTAGAGTATCCCC
1 GTGGAAAATGGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCC
19206 TCAGAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (51 bp):
GTGGAAAATGGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCGAAT
Found at i:19230 original size:28 final size:26
Alignment explanation
Indices: 19190--19289 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 26
19180 AATAAAGTCG
*
19190 GGGTTAGAGTATCCCCTCAGAAATAAC
1 GGGTTGGAGTATCCCCTC-GAAATAAC
*
19217 GAGGTTGGAATATCCCCTCGAAAATAAC
1 G-GGTTGGAGTATCCCCTCG-AAATAAC
*
19245 GGAGTTGGAGTATCCCCTCGAGAATGAC
1 GG-GTTGGAGTATCCCCTCGA-AATAAC
19273 GGGGTTGGAGTATCCCC
1 -GGGTTGGAGTATCCCC
19290 GATTGTGGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
27 4 0.06
28 58 0.91
29 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (26 bp):
GGGTTGGAGTATCCCCTCGAAATAAC
Found at i:21811 original size:20 final size:20
Alignment explanation
Indices: 21762--21818 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
21752 GTTAAAAACT
*
21762 AAAATGTATTAATACAATGA
1 AAAATGTATCAATACAATGA
* *
21782 AAAATTTATCGATACAATGA
1 AAAATGTATCAATACAATGA
**
21802 AGGATGTATCAATACAA
1 AAAATGTATCAATACAA
21819 ATTGTGAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (20 bp):
AAAATGTATCAATACAATGA
Found at i:21967 original size:102 final size:102
Alignment explanation
Indices: 21788--21972 Score: 316
Period size: 102 Copynumber: 1.8 Consensus size: 102
21778 ATGAAAAATT
*
21788 TATCGATACAATGAAGGATGTATCAATACAAATTGTGAAACTTTTGAATTTTTGACCGTTGGGAC
1 TATCGATACAATGAAGGATGTATCAATACAAATTGTGAAAATTTTGAATTTTTGACCGTTGGGAC
21853 CTTGTATCGATACATTAAAAGCATAAAACCTAGAATG
66 CTTGTATCGATACATTAAAAGCATAAAACCTAGAATG
* * *
21890 TATCGATACAATGAAGGATGTATCGATACAAATTGTGAAAATTTTGATTTTTTTACCGTTGGGAC
1 TATCGATACAATGAAGGATGTATCAATACAAATTGTGAAAATTTTGAATTTTTGACCGTTGGGAC
* *
21955 CTTTTATTGATACATTAA
66 CTTGTATCGATACATTAA
21973 GGGCATGTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 77 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (102 bp):
TATCGATACAATGAAGGATGTATCAATACAAATTGTGAAAATTTTGAATTTTTGACCGTTGGGAC
CTTGTATCGATACATTAAAAGCATAAAACCTAGAATG
Found at i:22612 original size:75 final size:77
Alignment explanation
Indices: 22486--22665 Score: 222
Period size: 75 Copynumber: 2.4 Consensus size: 77
22476 AGGAAAGGGC
* * * *
22486 GTCCTGCTCTTTGAGGACAAATGA-AAAGGAGTACGTCCTGCTCTTCGAGGACAAAGGAAAAG-A
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAGGAGTACATCCTACTCTTCAAGGACAAAGGAAAAGAA
22549 G-AATGAAATGG
66 GAAATGAAATGG
* * * *
22560 GTCCTGCACCTTGAGGACAAAGGAGAAAGGAGTACATCTTACTCTTTAAGGACAAAGGAAAAGAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAGGAGTACATCCTACTCTTCAAGGACAAAGGAAAAGAA
* * *
22625 GAAAATTAAGTGT
66 G-AAATGAAATGG
*
22638 GTCCTCCTCTTTGAGGACAAAGGAGAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAA
22666 AGGAAATAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
74 21 0.24
75 33 0.38
76 2 0.02
78 32 0.36
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (77 bp):
GTCCTGCTCTTTGAGGACAAAGGAGAAAGGAGTACATCCTACTCTTCAAGGACAAAGGAAAAGAA
GAAATGAAATGG
Found at i:22691 original size:42 final size:43
Alignment explanation
Indices: 22599--22784 Score: 198
Period size: 42 Copynumber: 4.3 Consensus size: 43
22589 GAGTACATCT
* * * * *
22599 TACTCTTTAAGGACAAAGGAAAAGAAGAAAATTAAGTGTGTCC
1 TACTCTTTGAGGACAAAGGAGAAGAAGGAAATAAAGTGCGTCC
* *
22642 TCCTCTTTGAGGACAAAGGAGAA-AAGGAAATAAAGTGTGTCC
1 TACTCTTTGAGGACAAAGGAGAAGAAGGAAATAAAGTGCGTCC
* * * *
22684 TATTCTTTGAGGACAAAGGAGAA-AAAGAAATAAAGTGCATCT
1 TACTCTTTGAGGACAAAGGAGAAGAAGGAAATAAAGTGCGTCC
* * *
22726 TACTCTTTGAGGATAAAAGG-GAAATGAAGGAAATGAAGTGCGTCA
1 TACTCTTTGAGGA-CAAAGGAG-AA-GAAGGAAATAAAGTGCGTCC
22771 TACTCTTTGAGGAC
1 TACTCTTTGAGGAC
22785 TAAAAGTTGC
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
42 66 0.55
43 27 0.22
45 28 0.23
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (43 bp):
TACTCTTTGAGGACAAAGGAGAAGAAGGAAATAAAGTGCGTCC
Found at i:22860 original size:61 final size:61
Alignment explanation
Indices: 22773--22945 Score: 233
Period size: 61 Copynumber: 2.8 Consensus size: 61
22763 GTGCGTCATA
* * * * *
22773 CTCTTTGAGGACTAAAAGTTGCCACCAACTTATGTGGGGTTTAAAAGGAAAAGGC-GCCATG
1 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAGCC-TG
* *
22834 CTCTTTAAGGACTGAAAGGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
1 CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAGCCTG
* *
22895 CTCTTTGAA-GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAGGGAAA
1 CTCTTT-AAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAA
22946 GTGTCCTGCT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
61 96 0.96
62 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (61 bp):
CTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAGCCTG
Found at i:34241 original size:4 final size:4
Alignment explanation
Indices: 34232--34259 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34222 ACAAAACAAG
34232 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
34260 GCACCTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:36482 original size:78 final size:79
Alignment explanation
Indices: 36321--36511 Score: 235
Period size: 78 Copynumber: 2.4 Consensus size: 79
36311 AATGGGGTCA
* * **
36321 GAGT-TCCCTCTCAGAAATAATGGGGCTAGAGTATCCTCAATGGTGGAAAATCGATGTTTTGAAA
1 GAGTATCCC-CTCAGAAATAACGGGGTTAGAGTATCCTCAATAATGGAAAATCGATGTTTTGAAA
* *
36385 ATAAAACTAGGGTTG
65 ATAAAACCAGGGGTG
* * *
36400 GAGTATCTCCTCAGAAATTACGGGGTTAGAGTATCCTCGATAATGG-AAATCGATGTTTT-AGAA
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCAATAATGGAAAATCGATGTTTTGA-AA
*
36463 ATAAAGCCAGGGGTG
65 ATAAAACCAGGGGTG
* *
36478 GAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
1 GAGTATCCCCTCAGAAATAACGGGGTTAGAGTAT
36512 TTCCTGAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
77 1 0.01
78 57 0.59
79 35 0.36
80 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCTCAATAATGGAAAATCGATGTTTTGAAAA
TAAAACCAGGGGTG
Found at i:36509 original size:28 final size:28
Alignment explanation
Indices: 36472--36541 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
36462 AATAAAGCCA
36472 GGGG-TGGAGTATCCCCTCAAAAATAAC
1 GGGGTTGGAGTATCCCCTCAAAAATAAC
** *
36499 GGGGTTGGAGTATTTCCTGAAAAATAAC
1 GGGGTTGGAGTATCCCCTCAAAAATAAC
36527 GGGGTTGGAGTATCC
1 GGGGTTGGAGTATCC
36542 TCGATGGTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 4 0.11
28 33 0.89
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCTCAAAAATAAC
Found at i:39048 original size:50 final size:51
Alignment explanation
Indices: 38932--39067 Score: 177
Period size: 50 Copynumber: 2.7 Consensus size: 51
38922 AAAAATGCCT
* * * *
38932 GAATATATCGATACATTGAGATATGTATCGATACATCTGGGTTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTAAAACCCA
* *
38983 AAATGTATCAATACAATGAAAAATGTATCGATACATCTGGG-TAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTAAAACCCA
* *
39033 GAATGTATCGATACAAT-AAAGGATGCATCGATACA
1 GAATGTATCGATACAATGAAA-AATGTATCGATACA
39068 AATTGTGAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
49 3 0.04
50 36 0.49
51 35 0.47
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (51 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTTAAAACCCA
Found at i:45341 original size:2 final size:2
Alignment explanation
Indices: 45336--45366 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45326 TGTAATCTTT
45336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45367 CATTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46015 original size:27 final size:26
Alignment explanation
Indices: 45985--46070 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
45975 ACTTTGTTGA
*
45985 AAATTTCATTTATGAAAATTTAATTAT
1 AAATTTCATATAT-AAAATTTAATTAT
*
46012 AAATTTCATAGGTAAAAAATTTAATTA-
1 AAATTTCATA--TATAAAATTTAATTAT
*
46039 AAATTTCACATATAAAATTTTAATT-T
1 AAATTTCATATATAAAA-TTTAATTAT
46065 AAATTT
1 AAATTT
46071 TACAGGCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.12
26 13 0.25
27 18 0.35
28 12 0.24
29 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (26 bp):
AAATTTCATATATAAAATTTAATTAT
Found at i:46055 original size:26 final size:26
Alignment explanation
Indices: 45984--46070 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
45974 AACTTTGTTG
* *
45984 AAAATTTCATTTATGAAAATTTAATT
1 AAAATTTCATATATAAAAATTTAATT
46010 ATAAATTTCATAGGTA-AAAAATTTAATT
1 A-AAATTTCATA--TATAAAAATTTAATT
* *
46038 AAAATTTCACATATAAAATTTTAATT
1 AAAATTTCATATATAAAAATTTAATT
*
46064 TAAATTT
1 AAAATTT
46071 TACAGGCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
25 2 0.04
26 18 0.35
27 18 0.35
28 12 0.23
29 2 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (26 bp):
AAAATTTCATATATAAAAATTTAATT
Found at i:46081 original size:26 final size:25
Alignment explanation
Indices: 45999--46086 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 25
45989 TTCATTTATG
*
45999 AAAATTTAATTATAAATTTCATAGGTAA
1 AAAATTTAATT-TAAATTTCACAGG--A
* *
46027 AAAATTTAATTAAAATTTCACA-TA
1 AAAATTTAATTTAAATTTCACAGGA
*
46051 TAAAATTTTAATTTAAATTTTACAGGCA
1 -AAAA-TTTAATTTAAATTTCACAGG-A
*
46079 AAAGTTTA
1 AAAATTTA
46087 GTAAAAAGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
24 1 0.02
25 4 0.08
26 20 0.41
27 12 0.24
28 12 0.24
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAATTTAATTTAAATTTCACAGGA
Found at i:46985 original size:84 final size:83
Alignment explanation
Indices: 46834--46999 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 83
46824 AATAAGAAAT
* ** * *
46834 TAACTCATGCAAAGAGATATTCTTTGTGTTTGTGGGAATGAGTCAACTCATTAAAGAAATATTCT
1 TAACTCATGCAAAGAGATATTCATTGTACTTGTGAGAAAGAGTCAACTCATTAAAGAAATATTCT
46899 TTCGGTGCAAAGAGATCC
66 TTCGGTGCAAAGAGATCC
*
46917 TAACTGATGCAAAGAGATATTCATTGTACTTGTGAGAAAGAGTTCAACTCATTAAAGAAATATTC
1 TAACTCATGCAAAGAGATATTCATTGTACTTGTGAGAAAGAG-TCAACTCATTAAAGAAATATTC
*
46982 TTTCGGTGCAGAGAGATC
65 TTTCGGTGCAAAGAGATC
47000 TTATGCGAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 36 0.48
84 39 0.52
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (83 bp):
TAACTCATGCAAAGAGATATTCATTGTACTTGTGAGAAAGAGTCAACTCATTAAAGAAATATTCT
TTCGGTGCAAAGAGATCC
Found at i:47279 original size:16 final size:16
Alignment explanation
Indices: 47258--47298 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
47248 TATATGTAAA
47258 TATAAATTTTTAAAAT
1 TATAAATTTTTAAAAT
* *
47274 TATAAATATTTAATAT
1 TATAAATTTTTAAAAT
*
47290 TAAAAATTT
1 TATAAATTT
47299 ATAGACATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAAATTTTTAAAAT
Found at i:47800 original size:135 final size:132
Alignment explanation
Indices: 47532--47845 Score: 333
Period size: 135 Copynumber: 2.3 Consensus size: 132
47522 TACTAACGGG
*
47532 ACAAATCATTATAAACTAAAATAATCG-AGACTGATAAAAGAATTTGAATAATATTATATTAATA
1 ACAAATCATTATGAACTAAAATAAT-GAAGACTGAT--AA-AA----AATAATATTATATTAATA
* ** * *
47596 TTATTTTAATTTTTTAATATGTATGATCGATATCGATACCATGCCGGCTAAATTTTTTTAAAGAC
58 TTATTTTAATTTTTTAATATATACCATCGATATCGATACCATGCCAGCTAAATTTTTTCAAAGAC
*
47661 TTGTAACAGT
123 TTGTAACAAT
* * * *
47671 ACAAATCATTATGAACTAAAATAATTAAGATTGATAAAAAATAATATTATATTTATATTTTTTTA
1 ACAAATCATTATGAACTAAAATAATGAAGACTGATAAAAAATAATATTATATTAATATTATTTTA
* * * * * ** *
47736 ATTTTTTTTCAATATATACCATCGTTGTCGATACTATGTCAGTTGGATTTTTTCAAAGATTTGTA
66 A--TTTTTT-AATATATACCATCGATATCGATACCATGCCAGCTAAATTTTTTCAAAGACTTGTA
47801 ACAAT
128 ACAAT
* *
47806 ACAAATTATTATGAACTAAAATAATGGAGACTGATAAAAA
1 ACAAATCATTATGAACTAAAATAATGAAGACTGATAAAAA
47846 GTTTTAAATA
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
132 25 0.17
134 6 0.04
135 82 0.55
136 2 0.01
137 2 0.01
139 31 0.21
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (132 bp):
ACAAATCATTATGAACTAAAATAATGAAGACTGATAAAAAATAATATTATATTAATATTATTTTA
ATTTTTTAATATATACCATCGATATCGATACCATGCCAGCTAAATTTTTTCAAAGACTTGTAACA
AT
Found at i:48471 original size:7 final size:7
Alignment explanation
Indices: 48461--48499 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
48451 TTTTTTATTA
*
48461 AAACCCT
1 AAACCTT
*
48468 AAACCCTA
1 AAA-CCTT
48476 AAACCTT
1 AAACCTT
48483 AAACCTT
1 AAACCTT
48490 AAACCTT
1 AAACCTT
48497 AAA
1 AAA
48500 TAAAATACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCTT
Found at i:48477 original size:15 final size:15
Alignment explanation
Indices: 48459--48492 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48449 TATTTTTTAT
48459 TAAAACCCTAAACCC
1 TAAAACCCTAAACCC
* *
48474 TAAAACCTTAAACCT
1 TAAAACCCTAAACCC
48489 TAAA
1 TAAA
48493 CCTTAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAACCCTAAACCC
Found at i:48495 original size:14 final size:15
Alignment explanation
Indices: 48459--48499 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
48449 TATTTTTTAT
*
48459 TAAAACCCTAAACCC
1 TAAAACCTTAAACCC
48474 TAAAACCTTAAA-CC
1 TAAAACCTTAAACCC
*
48488 TTAAACCTTAAA
1 TAAAACCTTAAA
48500 TAAAATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAACCTTAAACCC
Found at i:49268 original size:3 final size:3
Alignment explanation
Indices: 49256--49301 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
49246 ATCTATCAAA
49256 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
49302 AGTTTTAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:49676 original size:22 final size:21
Alignment explanation
Indices: 49644--49685 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
49634 TTGTTTTTAA
*
49644 TTGTATAATATATATATATGTT
1 TTGTATAATATACAT-TATGTT
*
49666 TTGTATTATATACATTATGT
1 TTGTATAATATACATTATGT
49686 AATTTTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (21 bp):
TTGTATAATATACATTATGTT
Found at i:49735 original size:14 final size:14
Alignment explanation
Indices: 49696--49744 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
49686 AATTTTTATC
* *
49696 ATATAAAGAATAAA
1 ATATAAATATTAAA
*
49710 TATATAAAATATTATA
1 -ATAT-AAATATTAAA
49726 ATATAAATATTAAA
1 ATATAAATATTAAA
49740 ATATA
1 ATATA
49745 TATTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 14 0.48
15 8 0.28
16 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATATAAATATTAAA
Found at i:51518 original size:26 final size:27
Alignment explanation
Indices: 51470--51521 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
51460 TTATAGATAG
**
51470 AATTTAATTTTTTTGTTTAAAAAAATT
1 AATTTAATTTTTTTAATTAAAAAAATT
*
51497 AATTT-ATTTTTTTAATTCAAAAAAT
1 AATTTAATTTTTTTAATTAAAAAAAT
51522 AGATGTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (27 bp):
AATTTAATTTTTTTAATTAAAAAAATT
Found at i:56919 original size:39 final size:39
Alignment explanation
Indices: 56876--56953 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
56866 TTATATCTGG
56876 AGACACCCGAAGAACACTCAATGCACACTCGAGGCATAC
1 AGACACCCGAAGAACACTCAATGCACACTCGAGGCATAC
56915 AGACACCCGAAGAACACTCAATGCACACTCGAGGCATAC
1 AGACACCCGAAGAACACTCAATGCACACTCGAGGCATAC
56954 TTGGAAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.33, G:0.18, T:0.10
Consensus pattern (39 bp):
AGACACCCGAAGAACACTCAATGCACACTCGAGGCATAC
Found at i:58150 original size:14 final size:15
Alignment explanation
Indices: 58123--58152 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58113 TTTTTTATCT
58123 TTCTATATATTATTA
1 TTCTATATATTATTA
58138 TTCTATA-ATTATTA
1 TTCTATATATTATTA
58152 T
1 T
58153 ATAAAATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTATATATTATTA
Found at i:59512 original size:37 final size:38
Alignment explanation
Indices: 59410--59515 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 38
59400 ATAGTGTTTT
* *
59410 TTTTTTTTGAGAAAAGTGAGTAATTTTTTAAGTAATTG
1 TTTTTTTAGAGAAAAGTGAGTAATTTTTTAAGTAATAG
* * *
59448 TTTTTTTAAAAAGAAAA---AGCAATTTTTTACGTGAATAG
1 TTTTTTT--AGAGAAAAGTGAGTAATTTTTTAAGT-AATAG
59486 -TTTTTTAGAGAAAAGTGAGTAATTTTTTAA
1 TTTTTTTAGAGAAAAGTGAGTAATTTTTTAA
59516 AAAATTATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
35 7 0.13
37 19 0.35
38 22 0.41
40 6 0.11
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (38 bp):
TTTTTTTAGAGAAAAGTGAGTAATTTTTTAAGTAATAG
Found at i:59519 original size:20 final size:20
Alignment explanation
Indices: 59486--59539 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
59476 ACGTGAATAG
59486 TTTTTTAGAGAAAAGTGAGTAA-
1 TTTTTTA-A-AAAA-TGAGTAAT
* *
59508 TTTTTTAAAAAATTATTAAT
1 TTTTTTAAAAAATGAGTAAT
59528 TTTTTTAAAAAA
1 TTTTTTAAAAAA
59540 AATTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 16 0.55
21 1 0.03
22 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.46
Consensus pattern (20 bp):
TTTTTTAAAAAATGAGTAAT
Found at i:62544 original size:16 final size:16
Alignment explanation
Indices: 62525--62558 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
62515 AGCTATTATG
*
62525 AACATGAGTTATTTTA
1 AACATGAATTATTTTA
62541 AACATGAATTATTTTA
1 AACATGAATTATTTTA
62557 AA
1 AA
62559 TAAAGGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
AACATGAATTATTTTA
Found at i:65923 original size:48 final size:49
Alignment explanation
Indices: 65828--65925 Score: 117
Period size: 48 Copynumber: 2.0 Consensus size: 49
65818 TAATAACTTA
* * * *
65828 AATTTAATTATTTAATAATATTTGTATTTTATTGTTTCGCATTTAATAAT
1 AATTTAA-TATTTAATAATATTTGGATTTTATTATTTCACATATAATAAT
* * *
65878 AATTTAA-ATTTAATATTATTTGGATTTTATTATTTTATATATAATAAT
1 AATTTAATATTTAATAATATTTGGATTTTATTATTTCACATATAATAAT
65926 TACTTGAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 34 0.83
50 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (49 bp):
AATTTAATATTTAATAATATTTGGATTTTATTATTTCACATATAATAAT
Found at i:65936 original size:48 final size:48
Alignment explanation
Indices: 65837--65936 Score: 110
Period size: 48 Copynumber: 2.1 Consensus size: 48
65827 AAATTTAATT
* * * * *
65837 ATTTAATAATATTTGTATTTTATTGTTTCGCATTTAATAATAATTTAA
1 ATTTAATAATATTTGGATTTTATTATTTCACATATAATAATAACTTAA
* * * * *
65885 ATTTAATATTATTTGGATTTTATTATTTTATATATAATAATTACTTGA
1 ATTTAATAATATTTGGATTTTATTATTTCACATATAATAATAACTTAA
65933 ATTT
1 ATTT
65937 CACTTATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (48 bp):
ATTTAATAATATTTGGATTTTATTATTTCACATATAATAATAACTTAA
Found at i:66044 original size:24 final size:23
Alignment explanation
Indices: 66017--66071 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
66007 TTTGTTCAAG
66017 AATATATTTAATT-ATATGTTAATA
1 AATATATTTAATTAATAT-TT-ATA
* *
66041 AATATGTTTATTTAATATTTATA
1 AATATATTTAATTAATATTTATA
66064 AATA-ATTT
1 AATATATTT
66072 TTTAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.11
23 7 0.26
24 13 0.48
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATATATTTAATTAATATTTATA
Found at i:67319 original size:17 final size:18
Alignment explanation
Indices: 67296--67349 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
67286 AATATTTGAT
67296 ATTTAATAAAATAAAATG
1 ATTTAATAAAATAAAATG
*
67314 -TTTAATAATTATAAATATG
1 ATTTAATAA-AATAAA-ATG
**
67333 ATTTAGCAAAATAAAAT
1 ATTTAATAAAATAAAAT
67350 TAAACAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 8 0.28
20 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (18 bp):
ATTTAATAAAATAAAATG
Found at i:67598 original size:3 final size:3
Alignment explanation
Indices: 67590--67629 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
67580 GAGAATCTTA
67590 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
67630 AAAACACTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:69147 original size:3 final size:3
Alignment explanation
Indices: 69139--69165 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
69129 ATATCAGGAG
69139 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
69166 CAACCATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:72319 original size:15 final size:15
Alignment explanation
Indices: 72299--72336 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
72289 TATAAAATTA
72299 TTTTAATATTATC-AT
1 TTTTAATATT-TCTAT
72314 TTTTAATATTTCTAT
1 TTTTAATATTTCTAT
*
72329 TTTGAATA
1 TTTTAATA
72337 AATATACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTTAATATTTCTAT
Found at i:72589 original size:25 final size:21
Alignment explanation
Indices: 72561--72614 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 21
72551 ACTAATAAAT
72561 ATATAAATTAAATTTTAATTATCTA
1 ATATAAATT--ATTTTAA-TAT-TA
72586 ATATTAGAATTATTTTAATATTA
1 ATA-TA-AATTATTTTAATATTA
72609 ATATAA
1 ATATAA
72615 TATACTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
21 1 0.04
22 2 0.07
23 5 0.19
24 3 0.11
25 10 0.37
26 2 0.07
27 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATAAATTATTTTAATATTA
Found at i:73706 original size:39 final size:39
Alignment explanation
Indices: 73655--73741 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
73645 ACATGTTGCA
73655 TTTTAATTAGTGTAACATTAATTATAGATTATTATTATT
1 TTTTAATTAGTGTAACATTAATTATAGATTATTATTATT
73694 TTTTAATTAGTGTAACATTAATTATAGATTATTATTATT
1 TTTTAATTAGTGTAACATTAATTATAGATTATTATTATT
73733 TTTTAATTA
1 TTTTAATTA
73742 TGATTCGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (39 bp):
TTTTAATTAGTGTAACATTAATTATAGATTATTATTATT
Found at i:73724 original size:22 final size:22
Alignment explanation
Indices: 73660--73724 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
73650 TTGCATTTTA
73660 ATTAGTGTAACATTAATTATAG
1 ATTAGTGTAACATTAATTATAG
** *
73682 ATTA-T-TATTATT--TTTTA-
1 ATTAGTGTAACATTAATTATAG
73699 ATTAGTGTAACATTAATTATAG
1 ATTAGTGTAACATTAATTATAG
73721 ATTA
1 ATTA
73725 TTATTATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.12
18 5 0.16
19 5 0.16
20 5 0.16
21 5 0.16
22 8 0.25
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTAGTGTAACATTAATTATAG
Found at i:77331 original size:7 final size:7
Alignment explanation
Indices: 77319--77360 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
77309 CATGGGCTTA
77319 CCACTTG
1 CCACTTG
77326 CCACTTG
1 CCACTTG
77333 CCACTTG
1 CCACTTG
77340 CCACTTG
1 CCACTTG
77347 CCACTTG
1 CCACTTG
77354 CCACTTG
1 CCACTTG
77361 GGTTGGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.14, C:0.43, G:0.14, T:0.29
Consensus pattern (7 bp):
CCACTTG
Found at i:77612 original size:2 final size:2
Alignment explanation
Indices: 77607--77637 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
77597 AAAAAAAATC
77607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
77638 GCATATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78882 original size:2 final size:2
Alignment explanation
Indices: 78869--78928 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
78859 CCAAATTAAG
* * *
78869 AT AT AA AT AT AT AT CT TT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78911 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
78929 TCTAGCTCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79548 original size:2 final size:2
Alignment explanation
Indices: 79541--79567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79531 TTCTCTACTT
79541 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
79568 TTTTTCGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:81179 original size:13 final size:13
Alignment explanation
Indices: 81161--81218 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
81151 CAATTTTTTG
81161 TGTATCGATACAT
1 TGTATCGATACAT
81174 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
81192 GTGTATCGATACAT
1 -TGTATCGATACAT
81206 TGTATCGATACAT
1 TGTATCGATACAT
81219 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81198 original size:19 final size:19
Alignment explanation
Indices: 81174--81236 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
81164 ATCGATACAT
81174 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
81193 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
81206 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
81225 TGTATCGATACA
1 TGTATCGATACA
81237 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:81198 original size:32 final size:32
Alignment explanation
Indices: 81141--81236 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
81131 TACAAGCCAA
**
81141 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATACTTTGTGTATCGATACAT
81174 TGTATCGATACATACTTTGTGTATCGATACAT
1 TGTATCGATACATACTTTGTGTATCGATACAT
81206 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
81237 AGTTTGGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.82
33 11 0.18
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:83761 original size:13 final size:13
Alignment explanation
Indices: 83743--83781 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
83733 ATTATCCCCC
*
83743 TGTATCGATACAG
1 TGTATCGATACAA
83756 TGTATCGATACAA
1 TGTATCGATACAA
83769 TGTATCGATACAA
1 TGTATCGATACAA
83782 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85881 original size:15 final size:15
Alignment explanation
Indices: 85861--85892 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
85851 ATTTCGTTTG
*
85861 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
85876 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
85891 GA
1 GA
85893 ACACTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:89881 original size:13 final size:13
Alignment explanation
Indices: 89863--89888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89853 CAATTTTTTG
89863 TGTATCGATACAT
1 TGTATCGATACAT
89876 TGTATCGATACAT
1 TGTATCGATACAT
89889 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:89900 original size:32 final size:33
Alignment explanation
Indices: 89843--89906 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
89833 TACAAGCCAA
**
89843 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
89876 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
89907 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:90970 original size:80 final size:80
Alignment explanation
Indices: 90837--90996 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
90827 TGGAGGTAAG
90837 GTGTTTGGGATACAAAAAGTATAGAAAAGTTACATTTTTGCCTAGATGTATCGATACATGCTTTT
1 GTGTTTGGGATACAAAAAGTATAGAAAAGTTACATTTTTGCCTAGATGTATCGATACATGCTTTT
90902 CATGTATCGATACAT
66 CATGTATCGATACAT
*
90917 GTGTTTGGGATACAAAAAGTATAGAAAAGTTACATTTTTGCCTAGATGTATCGATACATGTTTTT
1 GTGTTTGGGATACAAAAAGTATAGAAAAGTTACATTTTTGCCTAGATGTATCGATACATGCTTTT
90982 CATGTATCGATACAT
66 CATGTATCGATACAT
90997 CATCCCAACG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (80 bp):
GTGTTTGGGATACAAAAAGTATAGAAAAGTTACATTTTTGCCTAGATGTATCGATACATGCTTTT
CATGTATCGATACAT
Found at i:91057 original size:21 final size:20
Alignment explanation
Indices: 91033--91079 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
91023 TTCTACAATT
91033 TGTATCAACACAAACAGTGAA
1 TGTATCAACACAAA-AGTGAA
* * *
91054 TGTATCGATACATAAGTGAA
1 TGTATCAACACAAAAGTGAA
91074 TGTATC
1 TGTATC
91080 GATACATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
TGTATCAACACAAAAGTGAA
Found at i:91133 original size:20 final size:20
Alignment explanation
Indices: 91049--91146 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
91039 AACACAAACA
**
91049 GTGAATGTATCGATACATAA
1 GTGAATGTATCGATACATGT
91069 GTGAATGTATCGATACATGT
1 GTGAATGTATCGATACATGT
* * *
91089 GTGAATATATCAATACATTT
1 GTGAATGTATCGATACATGT
91109 GTGAATGTATCGATACATGT
1 GTGAATGTATCGATACATGT
* *
91129 TTGAAATGTATTGATACA
1 GTG-AATGTATCGATACA
91147 GGACTTTGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
20 54 0.81
21 13 0.19
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (20 bp):
GTGAATGTATCGATACATGT
Found at i:91293 original size:51 final size:50
Alignment explanation
Indices: 91179--91295 Score: 119
Period size: 50 Copynumber: 2.3 Consensus size: 50
91169 TGCATTCTGG
* * *
91179 AATATATCGATGCATTTTTCATTGTATTGATACATTAGGGTTAAAACCCA
1 AATATATCGATACATTATTCATTGTATCGATACATTAGGGTTAAAACCCA
** * * ***
91229 AATGCATCAATACATTATTCATTGTATCGATATATTCTA-GGTTTTGACCCA
1 AATATATCGATACATTATTCATTGTATCGATACA-T-TAGGGTTAAAACCCA
91280 AATATATCGATACATT
1 AATATATCGATACATT
91296 CTTCGATATA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
50 27 0.52
51 23 0.44
52 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (50 bp):
AATATATCGATACATTATTCATTGTATCGATACATTAGGGTTAAAACCCA
Found at i:92966 original size:28 final size:28
Alignment explanation
Indices: 92891--92966 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
92881 TTTTCATCAT
*
92891 GGGGATACTCCAACCCCATTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
**
92919 GGGGATACTATAACCCCGTTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
* *
92947 GGTGATACTCCAACCTCGTT
1 GGGGATACTCCAACCCCGTT
92967 TTTATTTACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:93041 original size:107 final size:107
Alignment explanation
Indices: 92843--93041 Score: 249
Period size: 107 Copynumber: 1.9 Consensus size: 107
92833 ATTCCGAAAG
* * * *
92843 GATACTTCAACCCTGTTTTTATTTCCAAAATATTAAAATTTTCATCATGGGGATACTCCAACCCC
1 GATACTCCAACCCTGTTTTTATTTACAAAATATTAAAATTTTCACCACGGGGATACTCCAACCCC
*
92908 ATTATTTTCGAGGGGATACTATAACCCCGTTATTTTCGAGGT
66 ATTATTTTCGAGGGGATACTACAACCCCGTTATTTTCGAGGT
* * * *
92950 GATACTCCAA-CCTCGTTTTTATTTACAAAATA-TCAATTTTTCACCAACGGGGATATTCCAACG
1 GATACTCCAACCCT-GTTTTTATTTACAAAATATTAAAATTTTCACC-ACGGGGATACTCCAACC
** * *
93013 CTGTTATTTTTGAGGGGATACTCCAACCC
64 CCATTATTTTCGAGGGGATACTACAACCC
93042 TTTTTTATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
106 13 0.17
107 64 0.83
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (107 bp):
GATACTCCAACCCTGTTTTTATTTACAAAATATTAAAATTTTCACCACGGGGATACTCCAACCCC
ATTATTTTCGAGGGGATACTACAACCCCGTTATTTTCGAGGT
Found at i:93096 original size:157 final size:158
Alignment explanation
Indices: 92921--93326 Score: 467
Period size: 157 Copynumber: 2.6 Consensus size: 158
92911 ATTTTCGAGG
** * * * * **
92921 GGATACTATAACCCCGTTATTT-TCGAGGTGATACTCCAACCTCGTTTTTATTTACAAAATATCA
1 GGATACTCCAACCCCGTTATTTCT-AAGGGGATACTCCAACCCCATTTTTATTTACAAAATATTG
* * * ** *
92985 ATTTTTCACCAACGGGGATATTCCAACGCTGTTATTTTTGAGGGGATACTCCAACCCT-TTTTTA
65 ATTTTTCACCATCGGGGATACTCCAACGCCGTTATTTCCGAGAGGATACTCCAACCCTATTTTTA
* * *
93049 TTTCCAGAATGTTAAATTTTTCATC-TCGA
130 TTTCCAAAATATT-AATTTTTCACCTTCGA
* * *
93078 GGATACTCCAACCCCGTTATTTCTAAGGGGATACTCTAACCCCATTTTTATTTCCCAAATATTGA
1 GGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCATTTTTATTTACAAAATATTGA
* * *
93143 TTTTTCACCTTCGAGGATACTCCAACTCCGTTATTTCCGAGAGGATACTCCAACCCTATTTTTAT
66 TTTTTCACCATCGGGGATACTCCAACGCCGTTATTTCCGAGAGGATACTCCAACCCTATTTTTAT
* * * *
93208 TTTCAAAATATTGATTTTTCACCTTTGT
131 TTCCAAAATATTAATTTTTCACCTTCGA
* ** ** * *
93236 GAATACTCCAGTCCTATTATTTCTAAGGGGATACTCCAACCCCATTTTTATTTTCAAAGTATTGA
1 GGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCATTTTTATTTACAAAATATTGA
93301 TTTTTCACCATCGGGGATACTCCAAC
66 TTTTTCACCATCGGGGATACTCCAAC
93327 CCCATCACTT
Statistics
Matches: 208, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
157 109 0.52
158 99 0.48
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (158 bp):
GGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCATTTTTATTTACAAAATATTGA
TTTTTCACCATCGGGGATACTCCAACGCCGTTATTTCCGAGAGGATACTCCAACCCTATTTTTAT
TTCCAAAATATTAATTTTTCACCTTCGA
Found at i:93364 original size:79 final size:78
Alignment explanation
Indices: 92921--93353 Score: 411
Period size: 79 Copynumber: 5.5 Consensus size: 78
92911 ATTTTCGAGG
** * * * * **
92921 GGATACTATAACCCCGTTATTTTCGAGGTGATACTCCAACCTCGTTTTTATTTACAAAATATCAA
1 GGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGA
* *
92986 TTTTTCACCAACGG
65 TTTTTCACCATCGA
* * * * * * * *
93000 GGATATTCCAACGCTGTTATTTTTGAGGGGATACTCCAA-CCCTTTTTTATTTCCAGAATGTTAA
1 GGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATT-G
*
93064 ATTTTTCATC-TCGA
64 ATTTTTCACCATCGA
* * *
93078 GGATACTCCAACCCCGTTATTTCTAAGGGGATACTCTAACCCCATTTTTATTTCCCAAATATTGA
1 GGATACTCCAACCCCGTTATTTC-GAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGA
*
93143 TTTTTCACCTTCGA
65 TTTTTCACCATCGA
* * * *
93157 GGATACTCCAACTCCGTTATTTCCGAGAGGATACTCCAACCCTATTTTTATTTTCAAAATATTGA
1 GGATACTCCAACCCCGTTATTT-CGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGA
* * *
93222 TTTTTCACCTTTGT
65 TTTTTCACCATCGA
* ** ** * * *
93236 GAATACTCCAGTCCTATTATTTCTAAGGGGATACTCCAACCCCATTTTTATTTTCAAAGTATTGA
1 GGATACTCCAACCCCGTTATTTC-GAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGA
*
93301 TTTTTCACCATCGG
65 TTTTTCACCATCGA
* * *
93315 GGATACTCCAACCCCATCACTTTCGAGGGAATACTCCAA
1 GGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAA
93354 TCTTGTTTTT
Statistics
Matches: 290, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
77 3 0.01
78 58 0.20
79 224 0.77
80 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTGAT
TTTTCACCATCGA
Found at i:96419 original size:28 final size:31
Alignment explanation
Indices: 96355--96420 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
96345 ATTTTTGGTT
* *
96355 AAATAATTATTTTACTATAGTTGATTTTATTT
1 AAATAATTA-TTTACTATAATTGATTTTATTC
*
96387 TAATAATTA-TTAC-ATAATT-ATTTTATTC
1 AAATAATTATTTACTATAATTGATTTTATTC
96415 AAATAA
1 AAATAA
96421 AGTTGCTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 13 0.43
29 5 0.17
30 4 0.13
32 8 0.27
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.52
Consensus pattern (31 bp):
AAATAATTATTTACTATAATTGATTTTATTC
Found at i:99660 original size:13 final size:13
Alignment explanation
Indices: 99642--99666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99632 CATTTTATGG
99642 TGTATCGATACAA
1 TGTATCGATACAA
99655 TGTATCGATACA
1 TGTATCGATACA
99667 TACTGTGTGT
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:99682 original size:32 final size:33
Alignment explanation
Indices: 99619--99686 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
99609 CGTTACAAGC
**
99619 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
99652 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
99684 CAA
1 CAA
99687 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:108414 original size:20 final size:20
Alignment explanation
Indices: 108367--108439 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
108357 GCCAATGACC
**
108367 TGTATCGATACATCTTTTTCA
1 TGTATCGATACAT-TTGGTCA
*
108388 AGTATCGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
108408 TGTATCGATACATTTGGTCA
1 TGTATCGATACATTTGGTCA
108428 TGTATCGATACA
1 TGTATCGATACA
108440 ATGTATCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 36 0.75
21 12 0.25
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTTGGTCA
Found at i:108445 original size:13 final size:13
Alignment explanation
Indices: 108427--108451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108417 ACATTTGGTC
108427 ATGTATCGATACA
1 ATGTATCGATACA
108440 ATGTATCGATAC
1 ATGTATCGATAC
108452 TGTGCAACAT
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):
ATGTATCGATACA
Found at i:111273 original size:157 final size:159
Alignment explanation
Indices: 111089--111445 Score: 370
Period size: 165 Copynumber: 2.2 Consensus size: 159
111079 AAACTAATTT
* * * *
111089 AATAACAATATTAGATGAATTTTAAAAATTTTAAATC-GAGAAAAATTCTCTCAAAAAAA-TTAC
1 AATAATAATATTTGATGAA-TTTAAAAATTTTAAATCAG-GAAAAATCCCCT-AAAAAAATTTAC
* * * * *
111152 GGAGA-AGAAAA-TTTGATTTTTCAAAAA-AT-AGGAATTTCAAGG-A-AAAAACTTATGAAAAT
63 GGA-ATAAAAAATTTTG-TATTTAAAAAACATGA-GAATTTCAAGGAATAAAAACTAATGAAAAA
* *
111211 GAATAAATTTTTAAAAACTAATTTAATATGGAATA
125 GAAGAAATTTTTAAAAACTAATTTAATATGAAATA
**
111246 AATAATAATATTTGATGAATATTAAAAATTAAAAATCAGGAAAAATCCCCTAAAAAAATTTACGG
1 AATAATAATATTTGATGAAT-TTAAAAATTTTAAATCAGGAAAAATCCCCTAAAAAAATTTACGG
* *
111311 AATAAAAAATTTTGTATTTAAAAAACATGAGAATTTTAAGGCAAAATTCAAAAACTAATTAAAAA
65 AATAAAAAATTTTGTATTTAAAAAACATGAGAATTTCAAGG---AA-T-AAAAACTAATGAAAAA
* * *
111376 GAAGGAATTTTTGAAAACTGATTTAATATGAAATA
125 GAAGAAATTTTTAAAAACTAATTTAATATGAAATA
*
111411 AATAATAATATTTCATGAATTTAAAAAATTTTAAA
1 AATAATAATATTTGATGAATTT-AAAAATTTTAAA
111446 ACCCATGAAA
Statistics
Matches: 164, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
156 9 0.05
157 62 0.38
158 17 0.10
159 1 0.01
162 1 0.01
164 2 0.01
165 72 0.44
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.31
Consensus pattern (159 bp):
AATAATAATATTTGATGAATTTAAAAATTTTAAATCAGGAAAAATCCCCTAAAAAAATTTACGGA
ATAAAAAATTTTGTATTTAAAAAACATGAGAATTTCAAGGAATAAAAACTAATGAAAAAGAAGAA
ATTTTTAAAAACTAATTTAATATGAAATA
Found at i:112911 original size:247 final size:244
Alignment explanation
Indices: 112474--112953 Score: 606
Period size: 247 Copynumber: 2.0 Consensus size: 244
112464 ACATGTTTGA
****
112474 AAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTGAGTGTTTTGAAAGATT
1 AAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTGACAAATTTGAAAGATT
* * * * *
112539 CGGTGCAAAACAATTCGAAAGATAAAAATGAATGATCAACATAAGGGTTTATAGAAGTTCAGTCC
66 CGGTACAAAACAATTCGAAAGATAAAAAGGAAAGATCAACACAAAGGTTTATAGAAGTTCAGTCC
* * * * * * * *
112604 AATTCGGTACCTACGTCCTCTCTCCTCGACACGTACTCGTCGAGTGGTTATCCAATTCACTACAC
131 AAATCAGCACCTACGTCCTCTCTCCTCGACACGTACTAGTCGAGTGGATACCCAATTCACTAAAA
112669 GAATTAATTACCTTTAAGGCAAAGGTATAACCTTACAAACTAAAAGCTC
196 GAATTAATTACCTTTAAGGCAAAGGTATAACCTTACAAACTAAAAGCTC
**
112718 AAGGAATAATGAACCAAGAGGGGGGGTGAATTGGTTCTTTTTGAATTTTTCCAAATTTGAAAGAA
1 AAGGAATAATGAACCAAGA-GGGGGGTGAATTGGTTCTTTTTGAATTTTGACAAATTTGAAAG-A
* ** * * *
112783 TT-GGTACGAAGTAATTTGAAA-A-ACAAAAGGAAGAGCAATCGACACAAAGGTTTATAGAGGTT
64 TTCGGTACAAAACAATTCGAAAGATA-AAAAGGAA-AG--ATCAACACAAAGGTTTATAGAAGTT
* * * * *
112845 CGGTCCAAATCAGCACCTATGTCCTCTCTCCTCGACACTTCCTAGTTGAGTGGATACCCAATTCA
125 CAGTCCAAATCAGCACCTACGTCCTCTCTCCTCGACACGTACTAGTCGAGTGGATACCCAATTCA
*
112910 CTAAAAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTACAA
190 CTAAAAGAATTAATTACCTTTAAGGCAAAGGTATAACCTTACAA
112954 TCCTTATCTT
Statistics
Matches: 199, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
243 1 0.01
244 27 0.14
245 52 0.26
246 3 0.02
247 116 0.58
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (244 bp):
AAGGAATAATGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTGACAAATTTGAAAGATT
CGGTACAAAACAATTCGAAAGATAAAAAGGAAAGATCAACACAAAGGTTTATAGAAGTTCAGTCC
AAATCAGCACCTACGTCCTCTCTCCTCGACACGTACTAGTCGAGTGGATACCCAATTCACTAAAA
GAATTAATTACCTTTAAGGCAAAGGTATAACCTTACAAACTAAAAGCTC
Found at i:113457 original size:20 final size:20
Alignment explanation
Indices: 113432--113484 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
113422 GTTACAAGCT
113432 ATGTATCGATACATTGTATC
1 ATGTATCGATACATTGTATC
113452 ATGTATCGATACATTGTATC
1 ATGTATCGATACATTGTATC
113472 ATGTATCGATACA
1 ATGTATCGATACA
113485 AATAGTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTATC
Found at i:113596 original size:33 final size:32
Alignment explanation
Indices: 113536--113600 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
113526 TAATTTGTCC
*
113536 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
* *
113568 ATGTATTGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
113601 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:114146 original size:17 final size:17
Alignment explanation
Indices: 114124--114187 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
114114 TCCGTTTTTC
114124 TCCCCCTTAAAAAATTT
1 TCCCCCTTAAAAAATTT
*
114141 TCCCCCTTTAACAATTATCTT
1 TCCCCC-TTAA-AA-AAT-TT
*
114162 CTCCCCCTTAAAAAATTC
1 -TCCCCCTTAAAAAATTT
114180 TCCCCCTT
1 TCCCCCTT
114188 TTTGTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 14 0.36
18 5 0.13
19 4 0.10
20 4 0.10
21 6 0.15
22 6 0.15
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.36
Consensus pattern (17 bp):
TCCCCCTTAAAAAATTT
Found at i:120851 original size:49 final size:49
Alignment explanation
Indices: 120717--120911 Score: 223
Period size: 49 Copynumber: 3.9 Consensus size: 49
120707 TATTGGACTT
* **
120717 GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAGACGGAAAAG
1 GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-A-GGTGAAG
* *
120768 GTG-TCAATATGCTGATTCAAGGCCAGC-GCTATTGGACTTAAAGGTGAAG
1 GTGCT-AATGTGCTGATTCAAGGCCAGCTAC-ATTGGACTTAAAGGTGAAG
* * *
120817 ATGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGG
1 GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG
* * * * *
120866 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTCAAGGTG
1 GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG
120912 TCAATATGCT
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
49 84 0.68
50 5 0.04
51 34 0.28
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (49 bp):
GTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGAAG
Found at i:120921 original size:100 final size:99
Alignment explanation
Indices: 120718--120998 Score: 278
Period size: 93 Copynumber: 2.9 Consensus size: 99
120708 ATTGGACTTG
*
120718 TGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAGACGGAAAAGGTGTCAATATGCTGA
1 TGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAGAC-GAAAAGGTGCCAATATGCTGA
120783 TTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGA
65 TTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGA
* * * *
120818 TGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAA-A-GATGAGGGTGCCAATGTGCTGA
1 TGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAGACGA-AAAGGTGCCAATATGCTGA
* * *
120881 TTCAAGGCTAGCGAC-ATTGGTCTTCAAGGT---G-
65 TTCAAGGCCAGCG-CTATTGGACTTAAAGGTGAAGA
* * * ** *
120912 T-C-AATATGCTGATTCAAGGCCAGCGATATTGAGTTTTAA-A-GATAAAGGTGCCAATATGCTG
1 TGCTAATGTGCTGATTCAAGGCCAGCTACATTG-GACTCAAGACGA-AAAGGTGCCAATATGCTG
* * * *
120973 GTTCAAGGCTAGAGATATTGGACTTA
64 ATTCAAGGCCAGCGCTATTGGACTTA
120999 GAAGAAGACG
Statistics
Matches: 156, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
92 26 0.17
93 45 0.29
94 1 0.01
95 1 0.01
97 2 0.01
98 40 0.26
99 2 0.01
100 39 0.25
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (99 bp):
TGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTCAAGACGAAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGCTATTGGACTTAAAGGTGAAGA
Found at i:120937 original size:43 final size:43
Alignment explanation
Indices: 120764--120942 Score: 162
Period size: 49 Copynumber: 3.9 Consensus size: 43
120754 TCAAGACGGA
120764 AAAGGTGTCAATATGCTGATTCAAGGCCAGCG-CTATTGGACTT
1 AAAGGTGTCAATATGCTGATTCAAGGCCAGCGAC-ATTGGACTT
* *
120807 AAAGGTGAAGATGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGT---G-T-C-AATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * * *
120856 AAAGATGAGGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 --A-A--A-GGTGTCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
120905 CAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTG
1 AAAGGTGTCAATATGCTGATTCAAGGCCAGCGACATTG
120943 AGTTTTAAAG
Statistics
Matches: 112, Mismatches: 11, Indels: 26
0.75 0.07 0.17
Matches are distributed among these distances:
43 37 0.33
44 1 0.01
46 2 0.02
47 1 0.01
48 1 0.01
49 61 0.54
50 2 0.02
51 1 0.01
52 2 0.02
54 1 0.01
55 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
AAAGGTGTCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:121108 original size:29 final size:28
Alignment explanation
Indices: 121020--121127 Score: 103
Period size: 28 Copynumber: 3.8 Consensus size: 28
121010 CATCAACTTG
* *
121020 TGTGGGCTTTTGAAAGGGTTG-CATCAACT
1 TGTGGGC-TTTAAAAGGG-TGCCACCAACT
* ** * **
121049 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACCAACT
121077 TGTGGGCTTTAAAAGGGGTGCCACCAACT
1 TGTGGGCTTTAAAA-GGGTGCCACCAACT
121106 TGTGGGC-TTAAAAGGGTGCCAC
1 TGTGGGCTTTAAAAGGGTGCCAC
121128 AGAGTTGTGG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
27 11 0.17
28 29 0.45
29 24 0.38
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCACCAACT
Found at i:121135 original size:27 final size:27
Alignment explanation
Indices: 121061--121147 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
121051 TGTGCTTTTG
* *
121061 AAGGTTGCCACTGACTTGTGGGCTTTAA
1 AAGGGTGCCACAGACTTGTGGGC-TTAA
121089 AAGGGGTGCCACCA-ACTTGTGGGCTTAA
1 AA-GGGTGCCA-CAGACTTGTGGGCTTAA
* *
121117 AAGGGTGCCACAGAGTTGTGGACTTAA
1 AAGGGTGCCACAGACTTGTGGGCTTAA
121144 AAGG
1 AAGG
121148 AAAAAGAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.04
27 24 0.46
28 8 0.15
29 17 0.33
30 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (27 bp):
AAGGGTGCCACAGACTTGTGGGCTTAA
Found at i:121136 original size:56 final size:56
Alignment explanation
Indices: 121020--121147 Score: 134
Period size: 56 Copynumber: 2.3 Consensus size: 56
121010 CATCAACTTG
* * * * ** * *
121020 TGTGGGCTTTTGAAAGGGTTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGC-TTTAAAAGGGGTGCACCAACTTGTGGGCTTTAAAAGGGTGCCACAGACT
*
121077 TGTGGGCTTTAAAAGGGGTGCCACCAACTTGTGGGC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGGTG-CACCAACTTGTGGGCTTTAAAAGGGTGCCACAGACT
*
121133 TGTGGAC-TTAAAAGG
1 TGTGGGCTTTAAAAGG
121148 AAAAAGAATG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
55 8 0.13
56 32 0.53
57 20 0.33
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.30
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGGGGTGCACCAACTTGTGGGCTTTAAAAGGGTGCCACAGACT
Found at i:121160 original size:34 final size:34
Alignment explanation
Indices: 121122--121349 Score: 176
Period size: 34 Copynumber: 6.6 Consensus size: 34
121112 CTTAAAAGGG
121122 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
** * * *
121156 TGCCATGGAGTTGTGGGCTTAAAAGAAAGAAAG-G
1 TGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGAA
* * *
121190 TGCCACGGAGTTGTGGACTTAGAAGG-AAAAGAG
1 TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
* * * *
121223 TTCCACAGAGTTATGGGCTTTAAAAAGAAAAA-AA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAA
* * *
121257 GGTGCCACTGAGTTGTGGACTTTAGAAGG-AAAAGAG
1 --TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAA
* * *
121293 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAAAA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAA
**
121328 GGTGCCATTGAGTTGTGGACTT
1 --TGCCACAGAGTTGTGGACTT
121350 TAGAAGGTTG
Statistics
Matches: 152, Mismatches: 32, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
32 4 0.03
33 16 0.11
34 76 0.50
35 17 0.11
36 24 0.16
37 15 0.10
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (34 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAA
Found at i:121263 original size:103 final size:101
Alignment explanation
Indices: 121115--121308 Score: 225
Period size: 103 Copynumber: 1.9 Consensus size: 101
121105 TTGTGGGCTT
* * * *
121115 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCA-TGGAGTTGTGGGCTTAAA
1 AAAAGAGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAATGCCACT-GAGTTGTGGACTT--A
*
121179 AGAAAG-AAAG-GTGCCACGGAGTTGTGGACTTAGAAGG
63 AGAAAGAAAAGAGTGCCACAGAGTTGTGGACTTAGAAGG
* * *
121216 AAAAGAGTTCCACAGAGTTATGGGCTTTAAAAAGAAAAA-AAGGTGCCACTGAGTTGTGGACTTT
1 AAAAGAGTGCCACAGAGTTATGGAC-TTAAAAAGAAAAAGAA--TGCCACTGAGTTGTGGACTTA
*
121280 AGAAGGAAAAGAGTGCCACAGAGTTGTGG
63 AGAAAGAAAAGAGTGCCACAGAGTTGTGG
121309 GCTTTAAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
101 28 0.36
102 16 0.21
103 33 0.42
104 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.20
Consensus pattern (101 bp):
AAAAGAGTGCCACAGAGTTATGGACTTAAAAAGAAAAAGAATGCCACTGAGTTGTGGACTTAAGA
AAGAAAAGAGTGCCACAGAGTTGTGGACTTAGAAGG
Found at i:121311 original size:70 final size:69
Alignment explanation
Indices: 121115--121356 Score: 335
Period size: 70 Copynumber: 3.5 Consensus size: 69
121105 TTGTGGGCTT
* * * * **
121115 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGGC-TT-AA
1 AAAAAGGTGCCACTGAGTTGTGGACTTAGAAGG-AAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
121178 AAGAA
65 AAGAA
* * * *
121183 AGAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAGAGTTCCACAGAGTTATGGGCTTTAAAA
1 AAAAAGGTGCCACTGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
121248 AGAA
66 AGAA
121252 AAAAAGGTGCCACTGAGTTGTGGACTTTAGAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACTGAGTTGTGGAC-TTAGAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
121317 AAGAAA
65 AAG-AA
*
121323 AAAAAGGTGCCATTGAGTTGTGGACTTTAGAAGG
1 AAAAAGGTGCCACTGAGTTGTGGAC-TTAGAAGG
121357 TTGCCACTGG
Statistics
Matches: 156, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
67 20 0.13
68 31 0.20
69 30 0.19
70 40 0.26
71 35 0.22
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.21
Consensus pattern (69 bp):
AAAAAGGTGCCACTGAGTTGTGGACTTAGAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA
AGAA
Found at i:122850 original size:10 final size:10
Alignment explanation
Indices: 122831--122868 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
122821 ATCCGGACCC
*
122831 TTTTTGTTGT
1 TTTTTTTTGT
122841 TTTTTTTTG-
1 TTTTTTTTGT
122850 TTTTTTTTGT
1 TTTTTTTTGT
122860 TTTGTTTTT
1 TTT-TTTTT
122869 TTTACGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 11 0.44
11 5 0.20
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:122857 original size:14 final size:14
Alignment explanation
Indices: 122831--122871 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
122821 ATCCGGACCC
*
122831 TTTTTG-TTGTTTT
1 TTTTTGTTTTTTTT
122844 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
*
122858 GTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
122872 ACGAAGGACG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.24
14 19 0.76
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:127092 original size:21 final size:22
Alignment explanation
Indices: 127058--127113 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
127048 TTTCACTGTT
127058 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
127080 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
*
127101 CATCACTGTTCAT
1 CATCACTATTCAT
127114 CGCTGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:127204 original size:13 final size:13
Alignment explanation
Indices: 127186--127210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127176 TCACTATTCA
127186 TGTATCGATACAT
1 TGTATCGATACAT
127199 TGTATCGATACA
1 TGTATCGATACA
127211 CTATAAATAG
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:127744 original size:34 final size:35
Alignment explanation
Indices: 127681--127747 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
127671 CTAAGTGATT
127681 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
127717 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
127748 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:129421 original size:84 final size:84
Alignment explanation
Indices: 129280--129453 Score: 203
Period size: 84 Copynumber: 2.1 Consensus size: 84
129270 ACTCAAAGAA
* * * *
129280 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
*
129345 TATGAAA-GAGTTACAAAAT-
66 -AAGAAATGAGTTAC-AAATG
* * *
129364 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATTAGAGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
*
129427 AAAAGAAATGAGTTGCAAATG
64 AAAAGAAATGAGTTACAAATG
129448 GAAAAT
1 GAAAAT
129454 GATGAATTGG
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
82 4 0.05
83 10 0.13
84 63 0.82
ACGTcount: A:0.53, C:0.03, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
AAGAAATGAGTTACAAATG
Found at i:132680 original size:13 final size:13
Alignment explanation
Indices: 132662--132686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
132652 CGTACTCAGA
132662 TGTATCGATACAT
1 TGTATCGATACAT
132675 TGTATCGATACA
1 TGTATCGATACA
132687 CAGCATTGGC
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:132757 original size:21 final size:22
Alignment explanation
Indices: 132723--132778 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
132713 TTTCACTGTT
132723 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
132745 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
*
132766 CATCACTGTTCAT
1 CATCACTATTCAT
132779 CGCTGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:140080 original size:10 final size:10
Alignment explanation
Indices: 140067--140115 Score: 64
Period size: 9 Copynumber: 4.7 Consensus size: 10
140057 GTGATGAAAA
140067 AAAAAAACAC
1 AAAAAAACAC
140077 AAAAAAAAACAAC
1 --AAAAAAAC-AC
140090 AAAAAAACA-
1 AAAAAAACAC
140099 AAAAAAACAC
1 AAAAAAACAC
140109 AAAAAAA
1 AAAAAAA
140116 AATGCAAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.26
10 8 0.23
11 8 0.23
12 8 0.23
13 2 0.06
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:140080 original size:12 final size:11
Alignment explanation
Indices: 140064--140117 Score: 81
Period size: 11 Copynumber: 4.8 Consensus size: 11
140054 AAAGTGATGA
140064 AAAAAAAAAAC
1 AAAAAAAAAAC
140075 ACAAAAAAAAAC
1 A-AAAAAAAAAC
*
140087 AACAAAAAAAC
1 AAAAAAAAAAC
*
140098 AAAAAAAACAC
1 AAAAAAAAAAC
140109 AAAAAAAAA
1 AAAAAAAAA
140118 TGCAAAGGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 27 0.71
12 11 0.29
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:140093 original size:8 final size:8
Alignment explanation
Indices: 140063--140114 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
140053 AAAAGTGATG
140063 AAAA-AAA
1 AAAACAAA
*
140070 AAAACACA
1 AAAACAAA
140078 AAAA-AAA
1 AAAACAAA
*
140085 ACAACAAA
1 AAAACAAA
140093 AAAACAAAA
1 AAAAC-AAA
140102 AAAACACAA
1 AAAACA-AA
140111 AAAA
1 AAAA
140115 AAATGCAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 9 0.24
8 14 0.38
9 14 0.38
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Found at i:140117 original size:13 final size:14
Alignment explanation
Indices: 140063--140096 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
140053 AAAAGTGATG
140063 AAAAAAAAA-AACA
1 AAAAAAAAACAACA
140076 CAAAAAAAAACAACA
1 -AAAAAAAAACAACA
140091 AAAAAA
1 AAAAAA
140097 CAAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAACA
Found at i:140375 original size:17 final size:16
Alignment explanation
Indices: 140353--140405 Score: 81
Period size: 15 Copynumber: 3.3 Consensus size: 16
140343 TGTTCTTTTC
140353 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAA-AAAA
140370 CAAAAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
*
140386 -AAGAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
140401 CAAAA
1 CAAAA
140406 CAGAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 14 0.42
16 7 0.21
17 12 0.36
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAAAAAAA
Found at i:140392 original size:23 final size:24
Alignment explanation
Indices: 140355--140411 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
140345 TTCTTTTCCA
*
140355 AAAAAAGAAACAAAACAAAAAAAG
1 AAAAAAGAAACAAAACAAAAAAAC
* *
140379 AAAAAA-AAAGAAAAGAAAAAAAC
1 AAAAAAGAAACAAAACAAAAAAAC
*
140402 AAAACAGAAA
1 AAAAAAGAAA
140412 AGCTCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAACAAAACAAAAAAAC
Found at i:140410 original size:15 final size:15
Alignment explanation
Indices: 140355--140412 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
140345 TTCTTTTCCA
140355 AAAAAAGAAACAAAAC
1 AAAAAAGAAA-AAAAC
140371 AAAAAAAGAAAAAAA-
1 -AAAAAAGAAAAAAAC
140386 AAGAAAAGAAAAAAAC
1 AA-AAAAGAAAAAAAC
*
140402 AAAACAGAAAA
1 AAAAAAGAAAA
140413 GCTCGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 6 0.16
17 10 0.26
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:141456 original size:30 final size:31
Alignment explanation
Indices: 141420--141534 Score: 115
Period size: 30 Copynumber: 3.7 Consensus size: 31
141410 ATACCTTTTT
141420 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
141450 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * * ** *
141481 AAAGCCCACAACTCCGTGGCACCTTGTTCCTTT
1 AAAGTCCACGACTCAGTGGCATTTTG-T-CTTC
* *
141514 TAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
141535 CCCTTTTAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
30 27 0.38
31 21 0.30
32 1 0.01
33 22 0.31
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:141712 original size:34 final size:34
Alignment explanation
Indices: 141602--142084 Score: 589
Period size: 34 Copynumber: 13.9 Consensus size: 34
141592 GTGGCATCCG
141602 TTAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
141635 TTAAAGCCCACAACTCTGTGGCACTTTTTTTCCCTTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTT
* *
141672 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
141706 TTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
141740 TTAAAGCCCACAACTCCGTGGCACCTTTTTC-TT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
141773 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTT
* *
141810 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
141844 TCAAAGCCCACAACTCCGTGGCACCTTCTTC-TT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
**
141877 TTAAAGCCCACAACTTTGTGGCACTCTTTTTTTTCCTTT
1 TTAAAGCCCACAACTCCGTGGCAC-C---TTTTT-CTTT
* **
141916 TCAAAGCCCACAACTCCGTGGCACCTTTTTCCGT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
141950 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTT
* *
141987 TCAAAGCCCACAACTCCGTGGCACTTTTTTC-TT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
142020 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTT
* * *
142056 TT-AAGTCCACAACTTCGTGGCATCTTTTT
1 TTAAAGCCCACAACTCCGTGGCACCTTTTT
142085 TCCTTCCCAA
Statistics
Matches: 397, Mismatches: 33, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
33 96 0.24
34 150 0.38
35 30 0.08
36 20 0.05
37 76 0.19
38 2 0.01
39 23 0.06
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.35
Consensus pattern (34 bp):
TTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
Found at i:141738 original size:104 final size:102
Alignment explanation
Indices: 141450--142089 Score: 648
Period size: 104 Copynumber: 6.3 Consensus size: 102
141440 ATTTTGTCTC
* * * * *
141450 AAAGTCCACGACTCAGTGGCA-T-TTTTT-C-TTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* *
141511 TTTT-AAGTCCACGACTCCGTGGCA-C--C--CTTTT
66 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* * * *
141542 AAAGCCCACAATTCTGTGGCACTTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA------TC
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCACCTTTTTC
** *
141600 -CGTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
65 TTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* *
141637 AAAGCCCACAACTCTGTGGCACTTTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
141702 CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
64 CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
* *
141742 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTC
1 AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
*
141805 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
64 -CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* * **
141845 CAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 -AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C---TT
* * *
141908 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTT
61 TTT-CTTTTTAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTT
*
141952 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 AAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
142017 C-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
64 CTTTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
*
142058 -AAGTCCACAACT-TCGTGGCA-TCTTTTTTCCTT
1 AAAGCCCACAACTCT-GTGGCACTC-TTTTTCCTT
142090 CCCAAAGCCC
Statistics
Matches: 476, Mismatches: 34, Indels: 64
0.83 0.06 0.11
Matches are distributed among these distances:
89 2 0.00
90 20 0.04
91 1 0.00
92 17 0.04
93 1 0.00
94 5 0.01
95 36 0.08
96 21 0.04
97 22 0.05
101 21 0.04
102 10 0.02
103 6 0.01
104 156 0.33
105 54 0.11
106 65 0.14
107 14 0.03
109 5 0.01
110 20 0.04
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (102 bp):
AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
TTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
Found at i:141776 original size:138 final size:138
Alignment explanation
Indices: 141448--142102 Score: 711
Period size: 138 Copynumber: 4.8 Consensus size: 138
141438 GCATTTTGTC
* * * * * *
141448 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* * * * * *
141510 CTTTT-AAGTCCACGACTCCGTGGCA--C-----CCTTTT-AAAGCCCACAATTCTGTGGCACTT
66 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-C
*
141566 TTTTTCATCTT
130 TTCTTC-T-TT
* *
141577 T--AAGTCCACAACTCCGTGGCA---TC--C-GTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
1 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
141632 CTTTTAAAGCCCACAACTCTGTGGCACTTTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACC
66 CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACC
141697 TTCTTCTTT
130 TTCTTCTTT
*
141706 TTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTCTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
141770 -CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC
65 CCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCAC
141834 CTTCTTCTTT
129 CTTCTTCTTT
**
141844 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTC---TTT
* * *
141909 TTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCCGTTT-AAAGCCCACAACTCTGTGGC
63 TTCCTTTT-AAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGC
*
141972 ACTCTTTTTCCCTTT
127 AC-CTTCTT--CTTT
* *
141987 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-
* **
142052 CCTTTT-AAGTCCACAACT-TCGTGGCA-TCTTTTTTCCTTCCCAAAGCCCACA
65 CCTTTTAAAGCCCACAACTCT-GTGGCACTC-TTTTTCCTTTTCAAAGCCCACA
142103 CAAGTCGGTG
Statistics
Matches: 461, Mismatches: 32, Indels: 54
0.84 0.06 0.10
Matches are distributed among these distances:
122 5 0.01
123 47 0.10
125 1 0.00
127 18 0.04
129 4 0.01
130 1 0.00
131 30 0.07
132 20 0.04
134 2 0.00
136 1 0.00
137 24 0.05
138 134 0.29
139 18 0.04
140 34 0.07
141 31 0.07
142 11 0.02
143 80 0.17
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (138 bp):
TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCT
TCTTCTTT
Found at i:142320 original size:49 final size:49
Alignment explanation
Indices: 142156--142704 Score: 639
Period size: 49 Copynumber: 11.4 Consensus size: 49
142146 GCAACCCCTC
* *
142156 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTT
* *
142208 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
142251 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * *
142300 TAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * *
142343 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * * *
142392 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
142441 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTT
* *
142493 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTT
* *
142545 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
142588 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
* * * *
142637 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
142686 TAAGTCCAATATCGCTGGC
1 TAAGTCCAATATAGCTGGC
142705 TCTTCATCTT
Statistics
Matches: 435, Mismatches: 41, Indels: 45
0.83 0.08 0.09
Matches are distributed among these distances:
43 115 0.26
45 3 0.01
47 3 0.01
49 182 0.42
51 2 0.00
52 130 0.30
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:142325 original size:92 final size:94
Alignment explanation
Indices: 142156--142704 Score: 632
Period size: 92 Copynumber: 5.7 Consensus size: 94
142146 GCAACCCCTC
* *
142156 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
142221 GCTGGCCTTGAATCAGCACATTGGCA-C-CTT
63 GCTGGCCTTGAATCAGCACATTGGCATCTCTT
* *
142251 TAAGTCCAATATCGCTGGCCTTGAATAAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
142316 GGCCTTGAATCAACACATTGGCA-C-CTT
66 GGCCTTGAATCAGCACATTGGCATCTCTT
* * *
142343 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATTTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
142408 GGCCTTGACTCAGCACATTGGCACCTTCATTTT
66 GGCCTTGAATCAGCACATTGGCA---TC-TCTT
*
142441 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
*
142506 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
63 GCTGGCCTTGAATCAGCACATTGGCA-----T-C-TCTT
* * * *
142545 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
142604 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCACATTGGCA---TC-TCTT
* * * * * *
142637 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
142702 GGC
66 GGC
142705 TCTTCATCTT
Statistics
Matches: 410, Mismatches: 26, Indels: 33
0.87 0.06 0.07
Matches are distributed among these distances:
92 175 0.43
93 6 0.01
95 76 0.19
96 2 0.00
97 1 0.00
98 62 0.15
100 2 0.00
101 42 0.10
103 2 0.00
104 42 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (94 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGAATCAGCACATTGGCATCTCTT
Found at i:142719 original size:29 final size:29
Alignment explanation
Indices: 142677--142733 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
142667 ACATTGGCAC
* *
142677 CTTCATCTTTAAGTCCAATATCGCTGGCT
1 CTTCATCTTGAAGTCCAATATAGCTGGCT
*
142706 CTTCATCTTGAAGTCCAATGTAGCTGGC
1 CTTCATCTTGAAGTCCAATATAGCTGGC
142734 CTTGACTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (29 bp):
CTTCATCTTGAAGTCCAATATAGCTGGCT
Found at i:142787 original size:43 final size:46
Alignment explanation
Indices: 142708--142847 Score: 160
Period size: 43 Copynumber: 3.0 Consensus size: 46
142698 CGCTGGCTCT
* *
142708 TCATCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * *
142754 -C-T-TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCA
1 TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
142797 TCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACA
1 ---TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
142846 TC
1 TC
142848 CTTTTTCATC
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
43 35 0.46
44 1 0.01
45 1 0.01
46 2 0.03
47 1 0.01
48 1 0.01
49 35 0.46
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (46 bp):
TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:142809 original size:121 final size:124
Alignment explanation
Indices: 142589--142825 Score: 309
Period size: 121 Copynumber: 1.9 Consensus size: 124
142579 TGGCACCTTT
* * *
142589 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---TCATCTTTAAGTCCAATATAGCTG
* *
142654 GCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCTCTTCATCTTG
63 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCTCTTCATCTTG
* * * *
142716 AAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-T-TTTAAGTCCAATATCGCTGGCT
1 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCTTTAAGTCCAATATAGCTGGCC
* * * *
142778 TTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAGCTGGC
66 TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGC
142826 CTTGAATCAG
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
121 61 0.63
122 1 0.01
123 1 0.01
127 34 0.35
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (124 bp):
AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCATCATCTTTAAGTCCAATATAGCTGGCC
TTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCTCTTCATCTTG
Found at i:142831 original size:49 final size:49
Alignment explanation
Indices: 142701--142847 Score: 173
Period size: 49 Copynumber: 3.1 Consensus size: 49
142691 CCAATATCGC
* *
142701 TGGC-TCTTCATCTTGAAGTCCAATGTAGCTGGCCTTGACTCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * * *
142749 TGGCA----C-T-TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
142792 TGGCATCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
142841 TGACATC
1 TGGCATC
142848 CTTTTTCATC
Statistics
Matches: 80, Mismatches: 12, Indels: 13
0.76 0.11 0.12
Matches are distributed among these distances:
43 35 0.44
44 1 0.01
45 1 0.01
47 1 0.01
48 5 0.06
49 37 0.46
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:142882 original size:56 final size:58
Alignment explanation
Indices: 142799--142973 Score: 149
Period size: 67 Copynumber: 2.9 Consensus size: 58
142789 TATTGGCATC
** * *
142799 TTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTT-TCA
1 TTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGACATCCTTTTCTCA
* * * *
142856 -TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCA
1 TTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-CTTTTCTCA
* * *
142920 TCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 --TTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGACATCCTTT
142974 ATCTTTAAGT
Statistics
Matches: 92, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
56 34 0.37
57 1 0.01
58 1 0.01
59 5 0.05
60 1 0.01
61 1 0.01
62 3 0.03
63 5 0.05
64 4 0.04
66 1 0.01
67 36 0.39
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (58 bp):
TTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGACATCCTTTTCTCA
Found at i:142981 original size:172 final size:170
Alignment explanation
Indices: 142756--143139 Score: 427
Period size: 172 Copynumber: 2.2 Consensus size: 170
142746 CATTGGCACT
* * * * * *
142756 TTTAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAG
* *
142821 CTGGCCTTG-A-ATCAGCACATTGACATCCTTTTTCATCATCTTT-AAGCCCAATATCGTTGGCC
66 CTAGCC--GCATATCAGCAC-TT-ACATCCTTTCTC-TCATCTTTGAA-CCCAATATCGTTGGCC
* *
142883 GTGAATCAACATATTGG-CATCTTTATCACTTTTC-TCATCTTCATC
125 GTGAATCAACATATTGGTCAT-TTTATCACTCTTCATCATCATCATC
* *
142928 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAG
** * **
142993 CTAGCCGCATATTGGCTCTTTTATCCTTTCTCTCATCTTTGAACCCAATATCGTTGGCCGTGAAT
66 CTAGCCGCATATCAGCACTTACATCCTTTCTCTCATCTTTGAACCCAATATCGTTGGCCGTGAAT
* * * *
143058 CAACGTATTGGTCCTTTTATCGCTCTTCATCCTCATCATC
131 CAACATATTGGTCATTTTATCACTCTTCATCATCATCATC
* * * * * *
143098 TTTGAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
143140 ACTGCAAAAC
Statistics
Matches: 180, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
169 51 0.28
170 59 0.33
171 3 0.02
172 67 0.37
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (170 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAG
CTAGCCGCATATCAGCACTTACATCCTTTCTCTCATCTTTGAACCCAATATCGTTGGCCGTGAAT
CAACATATTGGTCATTTTATCACTCTTCATCATCATCATC
Found at i:143705 original size:13 final size:13
Alignment explanation
Indices: 143687--143711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143677 CATAAAATGT
143687 TGTATCGATACAA
1 TGTATCGATACAA
143700 TGTATCGATACA
1 TGTATCGATACA
143712 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:143723 original size:33 final size:33
Alignment explanation
Indices: 143667--143733 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
143657 TTCAACGATT
*
143667 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
*** *
143700 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAATGTTGTATCAATACAA
143733 T
1 T
143734 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCAATACAA
Found at i:143794 original size:13 final size:13
Alignment explanation
Indices: 143776--143800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143766 ATTACTCACA
143776 TGTATCGATACAT
1 TGTATCGATACAT
143789 TGTATCGATACA
1 TGTATCGATACA
143801 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:147189 original size:34 final size:35
Alignment explanation
Indices: 147126--147192 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
147116 CTAAGTGATT
147126 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
147162 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
147193 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Done.