Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold256
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: 1244454
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 6 of 8
Found at i:878915 original size:38 final size:36
Alignment explanation
Indices: 878865--878946 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 36
878855 CCTAGACGCC
* * *
878865 TTTTTTGTTTGTT-TTTTTTTTGTTTTTGGTTTTTTTG
1 TTTTTTTTTTGTTGTTTTGTTT-TTTTTGG-TTTTTTA
878902 TTTTTTTTCTTGTTGTTTTGTTTTTTTTGGTTTTTTA
1 TTTTTTTT-TTGTTGTTTTGTTTTTTTTGGTTTTTTA
878939 TTTTTTTT
1 TTTTTTTT
878947 GGGTACGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 21 0.52
38 12 0.30
39 7 0.17
ACGTcount: A:0.01, C:0.01, G:0.13, T:0.84
Consensus pattern (36 bp):
TTTTTTTTTTGTTGTTTTGTTTTTTTTGGTTTTTTA
Found at i:884960 original size:13 final size:13
Alignment explanation
Indices: 884939--884969 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
884929 CGATACATGG
*
884939 TACAATGTATCGA
1 TACATTGTATCGA
884952 TACATTGTATCGA
1 TACATTGTATCGA
884965 TACAT
1 TACAT
884970 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:884979 original size:33 final size:33
Alignment explanation
Indices: 884923--884989 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
884913 CTATCATTAT
*
884923 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATGTATCAATACA
884956 TTGTATCGATACATGAAG-A-AATGTATCAATACA
1 TTGTATCGATACATG--GTACAATGTATCAATACA
884989 T
1 T
884990 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATGTATCAATACA
Found at i:888327 original size:18 final size:18
Alignment explanation
Indices: 888304--888339 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
888294 CAACTAGAAC
888304 GCAAAGTCTAGGTGGTAA
1 GCAAAGTCTAGGTGGTAA
888322 GCAAAGTCTAGGTGGTAA
1 GCAAAGTCTAGGTGGTAA
888340 AAGATATGGA
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:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (18 bp):
GCAAAGTCTAGGTGGTAA
Found at i:893056 original size:22 final size:22
Alignment explanation
Indices: 893031--893083 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
893021 AATTTTTACA
*
893031 TAAGGGGGAGAAGATAATTATT
1 TAAGGGGGAGAAGATAATCATT
*
893053 TAA-GGGG-G-AGATAATCGTT
1 TAAGGGGGAGAAGATAATCATT
893072 TAAGGGGGAGAA
1 TAAGGGGGAGAA
893084 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 12 0.46
20 5 0.19
21 5 0.19
22 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.23
Consensus pattern (22 bp):
TAAGGGGGAGAAGATAATCATT
Found at i:893592 original size:21 final size:19
Alignment explanation
Indices: 893545--893602 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
893535 TTTTATCGAT
*
893545 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
893564 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
893583 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
893603 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:893668 original size:13 final size:13
Alignment explanation
Indices: 893647--893677 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
893637 CGATACATGG
*
893647 TACAATGTATCGA
1 TACATTGTATCGA
893660 TACATTGTATCGA
1 TACATTGTATCGA
893673 TACAT
1 TACAT
893678 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:893673 original size:33 final size:32
Alignment explanation
Indices: 893631--893697 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
893621 CTATCACTAT
893631 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
893664 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
893697 T
1 T
893698 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:904376 original size:79 final size:78
Alignment explanation
Indices: 904242--904686 Score: 340
Period size: 79 Copynumber: 5.6 Consensus size: 78
904232 CATCTTAGGA
* * * * *
904242 GATACTCCAGCCCTC-TTTTTATTCCCAAAATATTAAAATTTTCCTTTCGGGGATACTCCAACCC
1 GATACTCCAACCC-CGTTTTTATTTCCAAAATATTAAAATTTTCATCTCGGAGATACTCCAACCC
** *
904306 TGTTATTTCTGAGG
65 CATTATTTCTAAGG
* **
904320 CGATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCACCTTAGAGATACTCCAACCC
1 -GATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCATCTCGGAGATACTCCAACCC
* * *
904385 CATCAATTACAAAGG
65 CAT-TATTTCTAAGG
* * * * ** ** * *
904400 GATACACTAACTCCGCTTTTATTTCCAAAATGCT-ATTTTTTCATCTCAG-GATACTCTAACCCC
1 GATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCATCTCGGAGATACTCCAACCCC
* * *
904463 ATCAATTCTGAGGG
66 ATTATTTCT-AAGG
* ** * ** * *
904477 GATACTCAAACTTCGTTTTTATTTACAAAATATT-GGATTCTTCATCACGGGGATACTCCAACCC
1 GATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATT-TTCATCTCGGAGATACTCCAACCC
** *
904541 TTTTATTTTTTAAGG
65 CATTA-TTTCTAAGG
** * *
904556 GATACTCCAACCTTGTTTTTATTTTCAAAATATTAAAATTTTTATCTCGGAGATACTCCAACCCC
1 GATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCATCTCGGAGATACTCCAACCCC
* *
904621 GTTATTTCCAAGAG
66 ATTATTTCTAAG-G
* * * * *
904635 GATACTCTAACCCATGTTTCTATTTCTAAAATATTGAAATTTTCATCATCGG
1 GATACTCCAACCC-CGTTTTTATTTCCAAAATATTAAAATTTTCATC-TCGG
904687 GGGTACTCTA
Statistics
Matches: 287, Mismatches: 69, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
76 3 0.01
77 47 0.16
78 26 0.09
79 166 0.58
80 41 0.14
81 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (78 bp):
GATACTCCAACCCCGTTTTTATTTCCAAAATATTAAAATTTTCATCTCGGAGATACTCCAACCCC
ATTATTTCTAAGG
Found at i:914227 original size:13 final size:13
Alignment explanation
Indices: 914196--914269 Score: 112
Period size: 13 Copynumber: 5.5 Consensus size: 13
914186 TTCAACGATT
914196 TGTATCGATACATAA
1 TGTATCGATAC--AA
914211 TGTATCGATACAA
1 TGTATCGATACAA
*
914224 TGTATCGCTACAA
1 TGTATCGATACAA
*
914237 TGTATCGCTACAA
1 TGTATCGATACAA
914250 TGTATCGATACAA
1 TGTATCGATACAA
914263 TGTATCG
1 TGTATCG
914270 CTACGAAGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
13 46 0.81
15 11 0.19
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:914392 original size:52 final size:52
Alignment explanation
Indices: 914347--914475 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
914337 CACTGATCTT
914347 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
914399 TCTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
914451 TGTATCGATGCATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
914476 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:918651 original size:29 final size:29
Alignment explanation
Indices: 918607--918706 Score: 182
Period size: 29 Copynumber: 3.4 Consensus size: 29
918597 CTTCCACATG
918607 CCGCATCTCACTACATAGCCACTAAGGAA
1 CCGCATCTCACTACATAGCCACTAAGGAA
*
918636 CTGCATCTCACTACATAGCCACTAAGGAA
1 CCGCATCTCACTACATAGCCACTAAGGAA
918665 CCGCATCTCACTACATAGCCACTAAGGAA
1 CCGCATCTCACTACATAGCCACTAAGGAA
*
918694 CCGTATCTCACTA
1 CCGCATCTCACTA
918707 GAAAGATAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (29 bp):
CCGCATCTCACTACATAGCCACTAAGGAA
Found at i:947263 original size:14 final size:14
Alignment explanation
Indices: 947244--947286 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
947234 TAGGTAATAA
947244 GGTTGACTTTTTAT
1 GGTTGACTTTTTAT
*
947258 GGTTGACTTTGCCTAT
1 GGTTGACTTT--TTAT
*
947274 GGTTGACGTTTTA
1 GGTTGACTTTTTA
947287 CTTTTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 12 0.50
16 12 0.50
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.49
Consensus pattern (14 bp):
GGTTGACTTTTTAT
Found at i:949135 original size:23 final size:23
Alignment explanation
Indices: 949093--949139 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
949083 AGAGAAATGT
949093 TTTTAAAAATATTTTCTTATCAAA
1 TTTTAAAAATATTTTCTTAT-AAA
949117 TTTTAAAAA-ATGTTT-TTATAAA
1 TTTTAAAAATAT-TTTCTTATAAA
949139 T
1 T
949140 GATATCATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 6 0.27
24 12 0.55
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTAAAAATATTTTCTTATAAA
Found at i:952048 original size:154 final size:155
Alignment explanation
Indices: 951769--952072 Score: 335
Period size: 154 Copynumber: 2.0 Consensus size: 155
951759 CAATGGTATG
* * ** * * *
951769 CATTTAGGATAGGTTTATCTTTTTATTATCTTTTGGTATCTTTTAAGGTTATTGAGATACTTTTA
1 CATTTAGGATAGGTTCATCTATTTATTATCTTTTCATATCCTTTAAGGTTACTGAGATACTTTCA
* * * * *
951834 CGTCAAAGGTATACCCTAAAGGTATTTTACTAATTTTTCTAGAACCAAGTCCTAGGTAGTCACCA
66 CATCAAAGATATACCCTAAAGGAATTTTACTAATTTTTCTAAAACCAAGTCCTAGATAGTCACCA
*
951899 GGTTGCCTTTATGCCAAAAGGGGCA
131 GGTTGCCTTTACGCCAAAAGGGGCA
* *
951924 CATTTAGGATAGGTTCATC-ATTTGTTATCTTTTCATGTCCTTTAAGGTTACCT-AGATACTTTC
1 CATTTAGGATAGGTTCATCTATTTATTATCTTTTCATATCCTTTAAGGTTA-CTGAGATACTTTC
* * ** * * * *
951987 ACATCAAAGATATATCCTAAGGGAATTTTGTTAATTTTTCTAAAATCGAGT-TTGATATAGTCAC
65 ACATCAAAGATATACCCTAAAGGAATTTTACTAATTTTTCTAAAACCAAGTCCT-AGATAGTCAC
** *
952051 TGGGTTGCTTTTACGCCAAAAG
129 CAGGTTGCCTTTACGCCAAAAG
952073 TGTGCATTAG
Statistics
Matches: 121, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
153 1 0.01
154 101 0.83
155 19 0.16
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (155 bp):
CATTTAGGATAGGTTCATCTATTTATTATCTTTTCATATCCTTTAAGGTTACTGAGATACTTTCA
CATCAAAGATATACCCTAAAGGAATTTTACTAATTTTTCTAAAACCAAGTCCTAGATAGTCACCA
GGTTGCCTTTACGCCAAAAGGGGCA
Found at i:953895 original size:11 final size:11
Alignment explanation
Indices: 953879--953906 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
953869 TTGGTTTTTG
953879 TTTTTTTGTTT
1 TTTTTTTGTTT
953890 TTTTTTTGTTT
1 TTTTTTTGTTT
953901 TTTTTT
1 TTTTTT
953907 CAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:955867 original size:13 final size:13
Alignment explanation
Indices: 955849--955874 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955839 TACACCAAGT
955849 ATGTATCGATACA
1 ATGTATCGATACA
955862 ATGTATCGATACA
1 ATGTATCGATACA
955875 CAAAAATTGT
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:955872 original size:32 final size:32
Alignment explanation
Indices: 955831--955893 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
955821 TAGCCAAACT
* *
955831 TGTATCGATACAC-CAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAT-TGTATCGATACAA
955863 TGTATCGATACACAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAATTGTATCGATACA
955894 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAATTGTATCGATACAA
Found at i:959302 original size:30 final size:30
Alignment explanation
Indices: 959266--959383 Score: 141
Period size: 30 Copynumber: 3.9 Consensus size: 30
959256 GTATAGTAAC
*
959266 CTTTTCAAAGTCCATGACTCAGTGACATCT
1 CTTTTCAAAGTCCATGACTCAGTGGCATCT
**
959296 CTTTTCAAAGTCCACAACTCAGTGGCATC-
1 CTTTTCAAAGTCCATGACTCAGTGGCATCT
*
959325 CTTTCTTCAAAGTCCATGACTTAGTGGCATCT
1 C-TT-TTCAAAGTCCATGACTCAGTGGCATCT
* *
959357 TTTTTCAAAGTCCACT-ACTCTGTGGCA
1 CTTTTCAAAGTCCA-TGACTCAGTGGCA
959384 CCCCTTTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
29 1 0.01
30 48 0.64
31 26 0.35
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTTCAAAGTCCATGACTCAGTGGCATCT
Found at i:959339 original size:61 final size:61
Alignment explanation
Indices: 959269--959383 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
959259 TAGTAACCTT
959269 TTCAAAGTCCATGACTCAGTGACATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTC
1 TTCAAAGTCCATGACTCAGTGACATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTC
* * * * *
959330 TTCAAAGTCCATGACTTAGTGGCATCTTTTTTCAAAGTCCACTACTCTGTGGCA
1 TTCAAAGTCCATGACTCAGTGACATCTCTTTTCAAAGTCCACAACTCAGTGGCA
959384 CCCCTTTTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (61 bp):
TTCAAAGTCCATGACTCAGTGACATCTCTTTTCAAAGTCCACAACTCAGTGGCATCCTTTC
Found at i:959576 original size:62 final size:62
Alignment explanation
Indices: 959490--960298 Score: 809
Period size: 62 Copynumber: 13.2 Consensus size: 62
959480 GGGCACGATG
** * * * * *
959490 TTTT-TTTTTAAAGCCCACA-GAAGTTAATGGCACTTTTTAGTCCTTAAAAAGTAAGATGCCT
1 TTTTCTTTTTAAAGCCCACACG-AGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * *
959551 TTTCCTTTTTAAAGCCTACACAAGTTAGTGGTACCTTTTAGTCCTCAAAGAGTAGGACGCCT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * * * * *
959613 TTATCTTTTAAAAGCCCACATGAGTTGGTGGCACTTTTTATTTCTCAAAGAATAGGATG-CT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * *
959674 TTTTCTTTTTTAAAGCCTATACGTGTTGGTGGTACCTTTTAGTCCTCAAAGAGTAGGATGCC-
1 TTTTC-TTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * *
959736 TTTT-TTTTT-AGGCCCACACGAGTTGGTGGCACCTTTTGGTCCTCAAAGAGCAGGACGCCT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * ** * * *
959796 TTTTC-TTTTAAAGGCCACATGAGTTGATGGCATATTTTTGTCCTCAAGGAGTAGGACGACT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * * * *
959857 TTTTCTTTTTAAAGGCCACATGAGTTGATAGCACCTTTTAGTCTTCAAAGAGCAGGATGCCT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * * * * *
959919 TTTTC-TTTTAAAGGCCACACAAGTCGGTGGCATCTTTTAGTCCTCAAAGTGTAGGGCACCTT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC-T
* * * * * **
959981 TTTCTCTTTTTAAAG-CCAAATGAGTTCGTGGCACCTTTTAGTCCTCAAATAGTAGGGCATCT
1 TTT-TCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * *
960043 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCGTTTAGTCCTCAAAGATGAAGG-CGCAT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GTAGGACGCCT
* * * *
960105 TTTTC-TTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGACGGCT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * * *
960166 TTTT-TATTTTAAAGCCTACACGAGTTGGTGGCACCTTTT-GTCCTCAAATAGCAAGACGCCT
1 TTTTCT-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
* * *
960227 TTTTCTTTTTAAAGCCTACACAAGTTGG-GGCACCTTTTAGTCCTTAAAGAGTAGGACGCCT
1 TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
*
960288 TTCTTTTTTTT
1 TT-TTCTTTTT
960299 CCTTTCAAAT
Statistics
Matches: 621, Mismatches: 108, Indels: 37
0.81 0.14 0.05
Matches are distributed among these distances:
59 42 0.07
60 27 0.04
61 222 0.36
62 278 0.45
63 44 0.07
64 8 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (62 bp):
TTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCT
Found at i:959905 original size:123 final size:122
Alignment explanation
Indices: 959466--960289 Score: 732
Period size: 123 Copynumber: 6.7 Consensus size: 122
959456 CCTTTTATCT
* * * ** *
959466 TTTTAGTCCTCAAAG-G--GCACGATGTTTT-TTTTTAAAGCCCACA-GAAGTTAATGGCACTTT
1 TTTTAGTCCTCAAAGAGTAGGACGCT-TTTTCTTTTTAAAGGCCACATG-AGTTGGTGGCACCTT
* * * * * * * * *
959526 TTAGTCCTTAAAAAGTAAGATGCCTTTTCCTTTTTAAA-GCCTACACAAGTTAGTGGTACC
64 TTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGGCC-ACACGAGTTGGTGGCACC
* * * *
959586 TTTTAGTCCTCAAAGAGTAGGACGCCTTTATCTTTTAAAAGCCCACATGAGTTGGTGGCACTTTT
1 TTTTAGTCCTCAAAGAGTAGGACG-CTTTTTCTTTTTAAAGGCCACATGAGTTGGTGGCACCTTT
* * ** * * * *
959651 TATTTCTCAAAGAATAGGATG-CTTTTTCTTTTTTAAA-GCCTATACGTGTTGGTGGTACC
65 TAGTCCTCAAAGAGCAGGACGCCTTTTTC--TTTTAAAGGCC-ACACGAGTTGGTGGCACC
* * *
959710 TTTTAGTCCTCAAAGAGTAGGATGCCTTTT-TTTTT--AGGCCCACACGAGTTGGTGGCACCTTT
1 TTTTAGTCCTCAAAGAGTAGGACGCTTTTTCTTTTTAAAGG-CCACATGAGTTGGTGGCACCTTT
* * * **
959772 TGGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGGCCACATGAGTTGATGGCATA
65 TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGGCCACACGAGTTGGTGGCACC
* * * *
959830 TTTTTGTCCTCAAGGAGTAGGACGACTTTTTCTTTTTAAAGGCCACATGAGTTGATAGCACCTTT
1 TTTTAGTCCTCAAAGAGTAGGACG-CTTTTTCTTTTTAAAGGCCACATGAGTTGGTGGCACCTTT
* * * * *
959895 TAGTCTTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGGCCACACAAGTCGGTGGCATC
65 TAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGGCCACACGAGTTGGTGGCACC
* * *
959953 TTTTAGTCCTCAAAGTGTAGGGCAC-CTTTTTCTCTTTTTAAA-GCCAAATGAGTTCGTGGCACC
1 TTTTAGTCCTCAAAGAGTA-GG-ACGC-TTTT-TCTTTTTAAAGGCCACATGAGTTGGTGGCACC
* * * ** *
960016 TTTTAGTCCTCAAATAGTAGGGCATCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC
62 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGGCCACACGAGTTGGTGGCACC
* * *
960078 GTTTAGTCCTCAAAGATGAAGG-CGCATTTTTC-TTTTAAAGCCCACATGAGTTGGTGGCACCTT
1 TTTTAGTCCTCAAAGA-GTAGGACGC-TTTTTCTTTTTAAAGGCCACATGAGTTGGTGGCACCTT
* * *
960141 TTAGTCCTCAAAAAGCAGGACGGCTTTTTTATTTTAAA-GCCTACACGAGTTGGTGGCACC
64 TTAGTCCTCAAAGAGCAGGAC-GCCTTTTTCTTTTAAAGGCC-ACACGAGTTGGTGGCACC
* * * **
960201 TTTT-GTCCTCAAATAGCAAGACGCCTTTTTCTTTTTAAA-GCCTACACAAGTTGG-GGCACCTT
1 TTTTAGTCCTCAAAGAGTAGGACG-CTTTTTCTTTTTAAAGGCC-ACATGAGTTGGTGGCACCTT
* *
960263 TTAGTCCTTAAAGAGTAGGACGCCTTT
64 TTAGTCCTCAAAGAGCAGGACGCCTTT
960290 CTTTTTTTTC
Statistics
Matches: 580, Mismatches: 96, Indels: 55
0.79 0.13 0.08
Matches are distributed among these distances:
120 56 0.10
121 53 0.09
122 71 0.12
123 190 0.33
124 154 0.27
125 54 0.09
126 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (122 bp):
TTTTAGTCCTCAAAGAGTAGGACGCTTTTTCTTTTTAAAGGCCACATGAGTTGGTGGCACCTTTT
AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGGCCACACGAGTTGGTGGCACC
Found at i:960820 original size:19 final size:20
Alignment explanation
Indices: 960796--960842 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
960786 TGTATCGATA
960796 CATTGTATCAATACATG-AT
1 CATTGTATCAATACATGCAT
960815 CATTGTATCAATACATGCAT
1 CATTGTATCAATACATGCAT
*
960835 AATTGTAT
1 CATTGTAT
960843 TGATACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
CATTGTATCAATACATGCAT
Found at i:962543 original size:3 final size:3
Alignment explanation
Indices: 962529--962559 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
962519 TATCAAAGAC
*
962529 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
962560 TTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:969282 original size:13 final size:13
Alignment explanation
Indices: 969264--969289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
969254 CACATCCAGA
969264 TGTATCGATACAT
1 TGTATCGATACAT
969277 TGTATCGATACAT
1 TGTATCGATACAT
969290 GATCATTATA
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:969327 original size:20 final size:19
Alignment explanation
Indices: 969274--969330 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
969264 TGTATCGATA
969274 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
*
969293 CATTATATCGATACATGCA-
1 CATTGTATCGATACATG-AT
*
969312 CAATTGTATTGATACATGA
1 C-ATTGTATCGATACATGA
969331 AACTGGTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:969430 original size:13 final size:13
Alignment explanation
Indices: 969412--969436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
969402 CATGGCACAT
969412 TGTATCGATACAA
1 TGTATCGATACAA
969425 TGTATCGATACA
1 TGTATCGATACA
969437 TGAAGAATTG
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:969447 original size:33 final size:33
Alignment explanation
Indices: 969366--969456 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
969356 ATTTGTATTG
* *
969366 ATACATGGTACAGTGTATCGATACAAAGTATCA
1 ATACATGGCACATTGTATCGATACAAAGTATCA
* *
969399 ATACATGGCACATTGTATCGATACAATGTATCG
1 ATACATGGCACATTGTATCGATACAAAGTATCA
969432 ATACATGAAG-A-ATTGTATCGATACA
1 ATACATG--GCACATTGTATCGATACA
969457 TTATCTCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
33 50 0.96
34 1 0.02
35 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (33 bp):
ATACATGGCACATTGTATCGATACAAAGTATCA
Found at i:970565 original size:51 final size:51
Alignment explanation
Indices: 970497--970621 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 51
970487 TATTTTGGGG
* * *
970497 ATAACAAT-GGGGCTGGAGTATCCCCAATTAT-AGAAAATCAGTG-TTTTGAAA
1 ATAA-AATCGGGGTTGGAGTATCCCCAATTATGA-AAAATCAATGCTTTAG-AA
* *
970548 ATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCTTTAGAA
1 ATAAAATCGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGCTTTAGAA
***
970599 ATAAGGCCGGGGTTGGAGTATCC
1 ATAAAATCGGGGTTGGAGTATCC
970622 TCGGGCAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.05
51 55 0.87
52 5 0.08
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (51 bp):
ATAAAATCGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGCTTTAGAA
Found at i:970690 original size:79 final size:79
Alignment explanation
Indices: 970555--970700 Score: 204
Period size: 79 Copynumber: 1.8 Consensus size: 79
970545 AAAATAAAAT
** *
970555 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCTTTAGAAATAAGGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCTTTAGAAATAAAACAGGGGTTGGAGTAT
970620 CCTCGGGCAAATAA
66 CCTCGGGCAAATAA
* *** *
970634 CGGGGTTGGAGTATCCCCGATTGTGAAAATTTGGTG-TCTTAGAAATAAAATAGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCT-TTAGAAATAAAACAGGGGTTGGAGTA
970698 TCC
65 TCC
970701 CCGATTGTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.02
79 57 0.98
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCTTTAGAAATAAAACAGGGGTTGGAGTAT
CCTCGGGCAAATAA
Found at i:970701 original size:51 final size:51
Alignment explanation
Indices: 970635--970753 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
970625 GGCAAATAAC
** * *
970635 GGGGTTGGAGTATCCCCGATTGTGA-AAATTTGGTGTCTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGAGAAA-TTAATATCTTAGAAATAAAACA
* * *
970686 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATCTTAGAAATAAAACA
970737 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
970754 TCGGAAATAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.95
52 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATCTTAGAAATAAAACA
Found at i:970743 original size:130 final size:129
Alignment explanation
Indices: 970546--970911 Score: 493
Period size: 131 Copynumber: 2.8 Consensus size: 129
970536 AGTGTTTTGA
* * ** *
970546 AAATAAAATCGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGCTTTAGAAATAAGGCCGGGG
1 AAATAAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGG
*
970611 TTGGAGTATCCTCGGGCAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA-TTTGGTGTCTTA
66 TTGGAGTATCCTC-GG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGATTGGTGTCTTA
970675 G
129 G
*
970676 AAATAAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAGAAATAAAGCCGGGG
1 AAATAAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGG
** * * * *
970741 TTGGAGTATCCCCTCGGAAATAACAAGATTGGATTATCCTCGATTGTGAAAAGATTGGTGTTTTA
66 TTGGAGTAT--CCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGATTGGTGTCTTA
970806 G
129 G
* * * *
970807 AAATAAACTTGGGGTTGGAGTATCCTCGATTGTGAGAAGTCAATATTTTAGAAATAAAGCCGGGG
1 AAATAAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGG
*
970872 TTGGAGTATCCCCTCGAAAATAA-GGGGATTGGAGTATCCC
66 TTGGAGTAT--CCTCGGAAATAACGGGG-TTGGAGTATCCC
970912 TAGGTATGAA
Statistics
Matches: 208, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
130 99 0.48
131 105 0.50
132 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (129 bp):
AAATAAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGG
TTGGAGTATCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGATTGGTGTCTTAG
Found at i:970860 original size:131 final size:130
Alignment explanation
Indices: 970510--970965 Score: 519
Period size: 130 Copynumber: 3.5 Consensus size: 130
970500 ACAATGGGGC
* * ** *
970510 TGGAGTATCCCCAATTAT-AGAAAATCAGTGTTTT-GAAAATAAAATCGGGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTAG-AAATAAAATAGGGGTTGGAGTATCCCC
* ** * *
970573 GATTGTGAAAAATCAATGCTTTAGAAATAAGGCCGGGGTTGGAGTAT--CCTCGGGCAAATAACG
64 GATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTC-GG-AAATAACA
* *
970636 GGGT
127 AGAT
* *
970640 TGGAGTATCCCCGATTGTGAAAATTTGGTGTCTTAGAAATAAAATAGGGGTTGGAGTATCCCCGA
1 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTATCCCCGA
*
970705 TTGTGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAAGAT
66 TTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAAGAT
* * * * *
970770 TGGATTATCCTCGATTGTGAAAAGATTGGTGTTTTAGAAATAAACTTGGGGTTGGAGTATCCTCG
1 TGGAGTATCCCCGATTGTGAAAA-ATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTATCCCCG
* * ***
970835 ATTGTGAGAAGTCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAAGGGGA
65 ATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAAGA
970900 T
130 T
* * * * * * *
970901 TGGAGTAT-CCCTAGGTATGAAAAATTGATGTTTTGGAAATAAAACCA-GAGTTGGAGTATCCCC
1 TGGAGTATCCCCGA-TTGTGAAAAATTGGTGTTTTAGAAATAAAA-TAGGGGTTGGAGTATCCCC
970964 GA
64 GA
970966 GATGAAAAAT
Statistics
Matches: 279, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
130 161 0.58
131 114 0.41
132 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (130 bp):
TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATAGGGGTTGGAGTATCCCCGA
TTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAAGAT
Found at i:970874 original size:51 final size:52
Alignment explanation
Indices: 970769--970882 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 52
970759 AATAACAAGA
* *** * *
970769 TTGGATTATCCTCGATTGTGAAAAGATTGGTGTTTTAGAAATAAACTTGGGG
1 TTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAACTCGGGG
*
970821 TTGGAGTATCCTCGATTGTGAGAAG-TCAATATTTTAGAAATAAAGC-CGGGG
1 TTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAA-CTCGGGG
970872 TTGGAGTATCC
1 TTGGAGTATCC
970883 CCTCGAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 30 0.56
52 24 0.44
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (52 bp):
TTGGAGTATCCTCGATTGTGAAAAGATCAATATTTTAGAAATAAACTCGGGG
Found at i:972740 original size:13 final size:13
Alignment explanation
Indices: 972722--972751 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
972712 GTAAACCTAG
972722 AATGTATCGATAC
1 AATGTATCGATAC
*
972735 AATGTATCTATAC
1 AATGTATCGATAC
972748 AATG
1 AATG
972752 AACAATGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:972770 original size:62 final size:63
Alignment explanation
Indices: 972673--972801 Score: 197
Period size: 62 Copynumber: 2.1 Consensus size: 63
972663 AAAAAGCCTA
* * * *
972673 AATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT-AAACCTAGAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATGCATCAATACATCTGGGTAAAACCCAGAATGTATCGATAC
* *
972735 AATGTATCTATACAATGAACAATGCATCAATACATCTGGGTAAAACCCAGAATGTATCGATAC
1 AATGTATCGATACAATGAAAAATGCATCAATACATCTGGGTAAAACCCAGAATGTATCGATAC
972798 AATG
1 AATG
972802 AACAATGGAT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
62 36 0.60
63 24 0.40
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (63 bp):
AATGTATCGATACAATGAAAAATGCATCAATACATCTGGGTAAAACCCAGAATGTATCGATAC
Found at i:974509 original size:20 final size:21
Alignment explanation
Indices: 974465--974515 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
974455 TTCTACAATT
974465 TGTATCGATACAAATAGTAAA
1 TGTATCGATACAAATAGTAAA
* *
974486 TGTATCGATACATA-AGTGAA
1 TGTATCGATACAAATAGTAAA
974506 TGTATCGATA
1 TGTATCGATA
974516 TAGGCCTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAAATAGTAAA
Found at i:975300 original size:20 final size:20
Alignment explanation
Indices: 975275--975326 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
975265 TACAAGCCAA
** *
975275 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
975295 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
975314 TGTATCGATACAA
1 TGTATCGATACAA
975327 GCTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:975331 original size:19 final size:18
Alignment explanation
Indices: 975275--975332 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
975265 TACAAGCCAA
* *
975275 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--CTTGG
975295 TGTATCGATACATACTTGG
1 TGTATCGATACA-ACTTGG
975314 TGTATCGATACAAGCTTGG
1 TGTATCGATACAA-CTTGG
975333 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAACTTGG
Found at i:984136 original size:15 final size:15
Alignment explanation
Indices: 984118--984147 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
984108 ATGAATCTTT
984118 GTGTCAAGAATTTTC
1 GTGTCAAGAATTTTC
984133 GTGTCAAGAATTTTC
1 GTGTCAAGAATTTTC
984148 TAAGTTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
GTGTCAAGAATTTTC
Found at i:985443 original size:13 final size:13
Alignment explanation
Indices: 985425--985450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
985415 ACATTTTTCT
985425 TTGTATCGATACA
1 TTGTATCGATACA
985438 TTGTATCGATACA
1 TTGTATCGATACA
985451 AGGTGATTAT
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):
TTGTATCGATACA
Found at i:985614 original size:20 final size:20
Alignment explanation
Indices: 985571--985616 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
985561 AAATCTTTTG
985571 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
985592 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
985612 CAAAA
1 CAAAA
985617 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:988021 original size:13 final size:13
Alignment explanation
Indices: 988003--988028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
987993 TACACCAAGT
988003 ATGTATCGATACA
1 ATGTATCGATACA
988016 ATGTATCGATACA
1 ATGTATCGATACA
988029 CAAAAAATTG
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:988026 original size:32 final size:33
Alignment explanation
Indices: 987985--988048 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
987975 TAGCCAAACT
* **
987985 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
988017 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
988049 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:988831 original size:20 final size:21
Alignment explanation
Indices: 988808--988858 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
988798 TTCAGGCCTA
988808 TATCGATACATTCACT-TATG
1 TATCGATACATTCACTATATG
* *
988828 TATCGATACATTTACTATTTG
1 TATCGATACATTCACTATATG
988849 TATCGATACA
1 TATCGATACA
988859 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (21 bp):
TATCGATACATTCACTATATG
Found at i:990593 original size:13 final size:13
Alignment explanation
Indices: 990575--990604 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
990565 ATGCATTGTT
990575 CATTGTATCGATA
1 CATTGTATCGATA
*
990588 CATTGTATCGGTA
1 CATTGTATCGATA
990601 CATT
1 CATT
990605 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:990645 original size:62 final size:63
Alignment explanation
Indices: 990525--990653 Score: 206
Period size: 62 Copynumber: 2.1 Consensus size: 63
990515 ATTCATTGTT
* * *
990525 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATTGATGCATTGTTCATTGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATA
* *
990588 CATTGTATCGGTACATTCTGGG-TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATA
1 CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATA
990650 CATT
1 CATT
990654 TAGGCTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
62 40 0.66
63 21 0.34
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (63 bp):
CATTGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATA
Found at i:993222 original size:130 final size:129
Alignment explanation
Indices: 993005--993357 Score: 471
Period size: 130 Copynumber: 2.7 Consensus size: 129
992995 TCATACCTAG
* *
993005 GGATACTCCAATCCCC-TTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTG
1 GGATAATCCAA-CCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCT-AAATATTG
* *
993069 ACTTCTCACAATCGAGGATACTCCAACCCCAAGTTTATTTCTAAAACACC-AATCGTTTCACAAT
64 ATTTCTCACAATCGGGGATACTCCAACCCCAAGTTTATTTCTAAAACACCAAAT--TTTCACAAT
993133 CGA
127 CGA
* ** *
993136 GGATAATCCAATCTTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAATATTAAT
1 GGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAATATTGAT
* * * *
993201 TTCTCACAATCGGGGATACTCCAACCCCTATTTTATTTCTAAGACACCAAATTTTCACAATCGG
66 TTCTCACAATCGGGGATACTCCAACCCCAAGTTTATTTCTAAAACACCAAATTTTCACAATCGA
* * *
993265 GGATACTCCAACCCCGTTATTTGCCCGA--GGATACTCCAACCCCGGCCTTATTTCTAAAGCATT
1 GGATAATCCAACCCCGTTATTT--CCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAA-TATT
*
993328 GATTTTTCACAATCGGGGATACTCCAACCC
63 GATTTCTCACAATCGGGGATACTCCAACCC
993358 TGTTATTTTC
Statistics
Matches: 197, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
129 58 0.29
130 84 0.43
131 55 0.28
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (129 bp):
GGATAATCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAATATTGAT
TTCTCACAATCGGGGATACTCCAACCCCAAGTTTATTTCTAAAACACCAAATTTTCACAATCGA
Found at i:993224 original size:50 final size:51
Alignment explanation
Indices: 993162--993280 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 51
993152 TTATTTCCGA
* * **
993162 GGGGATACTCCAACCCCGGCTTTATTTCTAA-ATA-TTAATTTCTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAGACACCAAATTT-TCACAATC
* *
993212 GGGGATACTCCAACCCCTATTTTATTTCTAAGACACCAAATTTTCACAATC
1 GGGGATACTCCAACCCCGACTTTATTTCTAAGACACCAAATTTTCACAATC
993263 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
993281 TTATTTGCCC
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 28 0.47
51 27 0.45
52 5 0.08
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAGACACCAAATTTTCACAATC
Found at i:993317 original size:79 final size:77
Alignment explanation
Indices: 993213--993440 Score: 244
Period size: 79 Copynumber: 2.9 Consensus size: 77
993203 CTCACAATCG
*
993213 GGGATACTCCAACCCCTATTTTATTTCTAAGACACCAAATTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAA-ACA-CAAATTTTCACAATCGGGGATACTCCAACC
993278 CCGTTATTTGCCCG-A
64 CCGTTATTT--CCGAA
*** ** *
993293 -GGATACTCCAACCCCGGCCTTATTTCTAAAGCATTGATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAA-CA-CAAATTTTCACAATCGGGGATACTCCAACC
* *
993357 CTGTTATTTTCGAA
64 CCGTTATTTCCGAA
* ** * *
993371 GGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCTATAATCGGGGATACTCCAGCC
1 GGGATACTCCAACCCCGATTTTA-TTTCTAAACACAAATTTTC-ACAATCGGGGATACTCCAACC
993436 CCGTT
64 CCGTT
993441 GTTATCCCCA
Statistics
Matches: 122, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.02
78 7 0.06
79 106 0.87
80 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (77 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAACACAAATTTTCACAATCGGGGATACTCCAACCCC
GTTATTTCCGAA
Found at i:994525 original size:13 final size:13
Alignment explanation
Indices: 994507--994531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
994497 CAATTCTTCA
994507 TGTATCGATACAT
1 TGTATCGATACAT
994520 TGTATCGATACA
1 TGTATCGATACA
994532 ATGTGCCATG
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:994529 original size:33 final size:33
Alignment explanation
Indices: 994487--994584 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
994477 TTTGAGATAA
994487 TGTATCGATACAAT-T-CTTCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
* *
994520 TGTATCGATACAATGTGCCATGTATTGATACTT
1 TGTATCGATACAATGTGCCATGTATCGATACAT
* * * *
994553 TTTATCGATACACTGTACCATGTATCAATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
994585 AATAGTGGTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 53 0.96
34 1 0.02
35 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:994639 original size:20 final size:20
Alignment explanation
Indices: 994613--994668 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
994603 ACTACCAGTT
*
994613 TCATGTATCAATACAATTG-
1 TCATGTATCGATACAATTGA
*
994632 TGCATGTATCGATATAA-TGA
1 T-CATGTATCGATACAATTGA
994652 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
994669 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:994672 original size:13 final size:13
Alignment explanation
Indices: 994654--994679 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
994644 TATAATGATC
994654 ATGTATCGATACA
1 ATGTATCGATACA
994667 ATGTATCGATACA
1 ATGTATCGATACA
994680 TCTGGATGTG
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:1003401 original size:37 final size:36
Alignment explanation
Indices: 1003359--1003447 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 36
1003349 AAGCAAGGGA
*
1003359 TGCCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAGG
1 TGCCACCAACTTGTGTGAGCTTAAAAA-AGAAAAAGG
* * * * *
1003396 TGCCACTAGCCTGTGCGAGCTTTAAAAAGAAAAAGG
1 TGCCACCAACTTGTGTGAGCTTAAAAAAGAAAAAGG
1003432 TGCCACCAACTTGTGT
1 TGCCACCAACTTGTGT
1003448 AGGATTTGAA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 21 0.50
37 21 0.50
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (36 bp):
TGCCACCAACTTGTGTGAGCTTAAAAAAGAAAAAGG
Found at i:1003464 original size:36 final size:36
Alignment explanation
Indices: 1003359--1003465 Score: 108
Period size: 36 Copynumber: 2.9 Consensus size: 36
1003349 AAGCAAGGGA
* *
1003359 TGCCACCAACTTGTGTGGGCTTAAAAAGAGAAAAAGG
1 TGCCACCAACTTGTGTAGGCTTTAAAAG-GAAAAAGG
* * * * *
1003396 TGCCACTAGCCTGTG-CGAGCTTTAAAAAGAAAAAGG
1 TGCCACCAACTTGTGTAG-GCTTTAAAAGGAAAAAGG
* *
1003432 TGCCACCAACTTGTGTAGGATTTGAAAGGAAAAA
1 TGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAA
1003466 AAAGAAAGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
36 34 0.62
37 21 0.38
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (36 bp):
TGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAAGG
Found at i:1003648 original size:62 final size:62
Alignment explanation
Indices: 1003461--1004243 Score: 778
Period size: 62 Copynumber: 12.7 Consensus size: 62
1003451 ATTTGAAAGG
* * * *
1003461 AAAAAAAAGAAAGGCGTCCTACTCTTTAAGGACTAAAAGGTGCC-CCAACTTGTGTAGGCTTT
1 AAAAAGAA-AAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
1003523 AAAAAGAAAAAGGCGTCTTGCTATTTGAGGAC-AAAAGGTGCCACCAACTCGTGTAGGCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
1003584 AAAATA-AAAAAGCCGTCTTGCTTTTTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTT
1 AAAA-AGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
1003646 -AAAAGAAAAATGC-ACCTTCATCTTTGAGGACTAAACGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAAGAAAAAGGCGTCCTAC-TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
** * * * * *
1003707 AAAAAGAAAAAGATGCCCTACTATTTGAGGACTAAAAGGTGCCACGAACTCAT-TTGGCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
1003768 AAAAAGAGAAAAAGGTGCCCTACACTTTGAGGACTAAAAGATGCCACCGACTTGTGTGGCCTTT
1 -AAAA-AGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * * *
1003832 -AAAAGAAAAAGGCATCCTGCTCTTTGAAGACTAAAAGGTGCTATCAACTCATGTGGCCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * ** * * *
1003893 AAAAAGAAAAAGTCGTCCTACTCCTTGAGGACAAAAATATGCCATCAACTCATGTGGCCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
1003955 -AAAAGAAAAAGGCGTCATGCTCTTTGAGGACCAAAAGGTGCCACCAACTCGTGTGGGC-CT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * *
1004015 AAAAA-AAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTACCACCAACACGTGTAGGCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
1004076 AAAAAAGAAAAA-GCATCCTATTCTTTGAGAAATAAAAAGTGCCACCAACTCATGTGGGCTTT
1 -AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
1004138 TAAAAGATAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTACCACTAACTTGTGTAGGCTTT
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
* * * * * *
1004200 AAAAAGGAAAAGGCATCTTACTTTTTAAGGACTAAAAAGTGCCA
1 AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCA
1004244 TTAACTTTTT
Statistics
Matches: 596, Mismatches: 109, Indels: 32
0.81 0.15 0.04
Matches are distributed among these distances:
60 61 0.10
61 225 0.38
62 254 0.43
63 50 0.08
64 6 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (62 bp):
AAAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:1003698 original size:123 final size:123
Alignment explanation
Indices: 1003491--1004243 Score: 705
Period size: 123 Copynumber: 6.1 Consensus size: 123
1003481 ACTCTTTAAG
** * * * * *
1003491 GACTAAAAGGTGCC-CCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCGTCTTGCTATTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGC-ACCTACTCTTTGAGGAC
* * *
1003555 -AAAAGGTGCCACCAACTCGTGTAGGCTTTAAAATA-AAAAAGCCGTCTTGCTTTTTGAA
65 TAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAA-AGAAAAAGGCATCCTGCTTTTTGAA
* *
1003613 GACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAATGCACCTTCATCTTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCACCTAC-TCTTTGAGGAC
* * * * *
1003677 TAAACGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAA-G-ATGCCCTACTATTTGAG
65 TAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAGGCAT--CCTGCTTTTTGAA
* * *
1003736 GACTAAAAGGTGCCACGAACTCAT-TTGGCTTTAAAAAGAGAAAAAGGTGC-CCTACACTTTGAG
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAA-AGAAAAA-G-GCACCTACTCTTTGAG
* * * *
1003799 GACTAAAAGATGCCACCGACTTGTGT-GGCCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAA
62 GACTAAAAGGTGCCACCAACTCGTGTAGG-CTTTAAAAAGAAAAAGGCATCCTGCTTTTTGAA
* * * * * *
1003860 GACTAAAAGGTGCTATCAACTCATGTGGCCTTTAAAAAGAAAAAGTCGTCCTACTCCTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGC-ACCTACTCTTTGAGGAC
* ** * * * * * *
1003925 AAAAATATGCCATCAACTCATGT-GGCCTTT-AAAAGAAAAAGGCGTCATGCTCTTTGAG
65 TAAAAGGTGCCACCAACTCGTGTAGG-CTTTAAAAAGAAAAAGGCATCCTGCTTTTTGAA
* * *
1003983 GACCAAAAGGTGCCACCAACTCGTGTGGGC-CTAAAAA-AAAAAGGCATCCTACTCTTTGAGGAC
1 GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCA-CCTACTCTTTGAGGAC
* * *
1004046 TAAAAGGTACCACCAACACGTGTAGGCTTTAAAAAAGAAAAA-GCATCCT-ATTCTTTG-A
65 TAAAAGGTGCCACCAACTCGTGTAGGCTTT-AAAAAGAAAAAGGCATCCTGCTT-TTTGAA
* * * * *
1004104 GAAATAAAAAGTGCCACCAACTCATGTGGGCTTTTAAAAGATAAAGGCGTCCTACTCTTTGAGGA
1 G-ACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGC-ACCTACTCTTTGAGGA
* * * * * *
1004169 CTAAAAGGTACCACTAACTTGTGTAGGCTTTAAAAAGGAAAAGGCATCTTACTTTTT-AA
64 CTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTTTTTGAA
*
1004228 GGACTAAAAAGTGCCA
1 -GACTAAAAGGTGCCA
1004244 TTAACTTTTT
Statistics
Matches: 520, Mismatches: 81, Indels: 58
0.79 0.12 0.09
Matches are distributed among these distances:
121 49 0.09
122 87 0.17
123 203 0.39
124 123 0.24
125 50 0.10
126 6 0.01
127 2 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (123 bp):
GACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAAGGCACCTACTCTTTGAGGACT
AAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAAGAAAAAGGCATCCTGCTTTTTGAA
Found at i:1009841 original size:78 final size:79
Alignment explanation
Indices: 1009577--1009842 Score: 275
Period size: 81 Copynumber: 3.4 Consensus size: 79
1009567 AATAAAAACG
* *
1009577 GGTTGAAGTAT-CCCAAGATGAAAAATTTAATATTTCAAAAATAAAAATGGGGTTGGAGTACACC
1 GGTTGAAGTATCCCCAAGATGAAAATTTTAATATTTCAAAAATAAAAATGGGGTTGGAGTACTCC
*
1009641 CTCAAAAATAATGA
66 CTAAAAAATAATGA
* * * * ** *
1009655 GGTTGAAATATCCCCGATGGTAAAAAACATTAATATTTCAAAAATAAAAATGGGGTTGGAGTATT
1 GGTTGAAGTATCCCC-AAGAT-GAAAATTTTAATATTTCAAAAATAAAAATGGGGTTGGAGTACT
*** *
1009720 CCCTTGGAAATAATGG
64 CCCTAAAAAATAATGA
* * ** * * * **
1009736 GGTTGGAGTATCACCTTGATGAAAATTTTAATATCTCAAACATAAAGACAGGGTTGGAGTA-TCC
1 GGTTGAAGTATCCCCAAGATGAAAATTTTAATATTTCAAAAATAAAAATGGGGTTGGAGTACTCC
*
1009800 CTAAAAAATAATTA
66 CTAAAAAATAATGA
*
1009814 GATTGAAGTATCCCCAAGATGAAAATTTT
1 GGTTGAAGTATCCCCAAGATGAAAATTTT
1009843 GATTTTATAG
Statistics
Matches: 150, Mismatches: 35, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
78 46 0.31
79 36 0.24
80 6 0.04
81 62 0.41
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (79 bp):
GGTTGAAGTATCCCCAAGATGAAAATTTTAATATTTCAAAAATAAAAATGGGGTTGGAGTACTCC
CTAAAAAATAATGA
Found at i:1014966 original size:105 final size:104
Alignment explanation
Indices: 1014849--1015038 Score: 299
Period size: 105 Copynumber: 1.8 Consensus size: 104
1014839 ACAGTACACT
* * * * * *
1014849 AAAGTTAAAGATTATGAAAATATTTAGGAACAAAAAGTAAATTTGAGTGTTTTTTAAGATCAGGG
1 AAAGTCAAAGATTATGAAAATATTTAGGAACAAAAAGTAAATTTGAGT-TATTTGAAAAACAAGG
*
1014914 TTGGAGTATTCCCTTAGAGTAATGGGGTTGGAGTTTCCCC
65 TTAGAGTATTCCCTTAGAGTAATGGGGTTGGAGTTTCCCC
*
1014954 AAAGTCAAAGATTATGAAAATATTTAGGAACAAAAGGTAAATTTGAGTTATTTGAAAAACAAGGT
1 AAAGTCAAAGATTATGAAAATATTTAGGAACAAAAAGTAAATTTGAGTTATTTGAAAAACAAGGT
1015019 TAGAGTATTCCCTTAGAGTA
66 TAGAGTATTCCCTTAGAGTA
1015039 GTGAAATTGG
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
104 31 0.40
105 46 0.60
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.32
Consensus pattern (104 bp):
AAAGTCAAAGATTATGAAAATATTTAGGAACAAAAAGTAAATTTGAGTTATTTGAAAAACAAGGT
TAGAGTATTCCCTTAGAGTAATGGGGTTGGAGTTTCCCC
Found at i:1015159 original size:195 final size:198
Alignment explanation
Indices: 1014924--1015361 Score: 530
Period size: 195 Copynumber: 2.2 Consensus size: 198
1014914 TTGGAGTATT
* * *
1014924 CCCTTAGAGTAATGGGGTTGGAGTTTCCCCAAAGTCAAAGATTATGAAAATATTTAGGAACAAA-
1 CCCTCAGAGTAGTGGGGTTGGAGTTTCCCCAAAGTCAAAGATTATGAAAATACTTAGGAACAAAG
* * * * *
1014988 AGGTAAATTTGAG-TTA-TTTGAAAAACAAGGTTAGAGTATTCCCTTAGAGTAGTGAAATTGGAG
66 A-GTAAAATTGAGTTTATTTTG-AAAACAAGGTTAAAGTATCCCCTCAGAGTAGTGAAATTAGAG
*
1015051 TTTT-TCCAAAAATAAAATTATACAAAGAGAAAATTTAAG-TTTTCTTATGAAGAACGAGATTTA
129 TTTTCT-CAAAAATAAAATTATACAAAGAGAAAATTTAAGTTTTTCTTATGAAGAACGAG-GTTA
1015114 G-G-ATC
192 GAGAATC
* *
1015119 CCCTCAGAGTAGTGGGGTTGGAGTTTCCCCAAAGTCAAAGATTATGAAAGTACTTAGGTACAAAG
1 CCCTCAGAGTAGTGGGGTTGGAGTTTCCCCAAAGTCAAAGATTATGAAAATACTTAGGAACAAAG
* * **
1015184 AGTAAAATTGAGTTTTTTTTATTTTGAAAATAGGGTTAAAGTATCCCCTCAGAGTAGTGAGGTTA
66 AGTAAAATTGAG-----TTTATTTTGAAAACAAGGTTAAAGTATCCCCTCAGAGTAGTGAAATTA
* * ** * *
1015249 GAGTTTTCTTAAAGATAAAATTATATGAAGAGAAAATTTGAGTTTTTTTTTATGAAGAACGAGGT
126 GAGTTTTCTCAAAAATAAAATTATACAAAGAGAAAATTTAAG-TTTTTCTTATGAAGAACGAGGT
1015314 TAGAGAATC
190 TAGAGAATC
* *
1015323 CCCTCGGAGTAGTGGGGTTGGAGTTTCCCCAAGGTCAAA
1 CCCTCAGAGTAGTGGGGTTGGAGTTTCCCCAAAGTCAAA
1015362 AATTTTTGAT
Statistics
Matches: 207, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
195 69 0.33
196 1 0.00
201 69 0.33
202 9 0.04
203 19 0.09
204 40 0.19
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (198 bp):
CCCTCAGAGTAGTGGGGTTGGAGTTTCCCCAAAGTCAAAGATTATGAAAATACTTAGGAACAAAG
AGTAAAATTGAGTTTATTTTGAAAACAAGGTTAAAGTATCCCCTCAGAGTAGTGAAATTAGAGTT
TTCTCAAAAATAAAATTATACAAAGAGAAAATTTAAGTTTTTCTTATGAAGAACGAGGTTAGAGA
ATC
Found at i:1018020 original size:19 final size:20
Alignment explanation
Indices: 1017975--1018026 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1017965 TTGCAAGCCA
*
1017975 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
1017995 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
1018015 -TGTATCGATACA
1 ATGTATCGATACA
1018027 AATAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:1020133 original size:22 final size:21
Alignment explanation
Indices: 1020103--1020147 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1020093 TGCTATTGTG
*
1020103 GGGGCTGCCTCGGTTGCGACCTA
1 GGGGCTG-C-CGGTCGCGACCTA
1020126 GGGG-TGCCGGTCGCGACCTA
1 GGGGCTGCCGGTCGCGACCTA
1020146 GG
1 GG
1020148 TGAGTGCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.67
21 1 0.05
22 2 0.10
23 4 0.19
ACGTcount: A:0.09, C:0.29, G:0.44, T:0.18
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCTA
Found at i:1020809 original size:8 final size:8
Alignment explanation
Indices: 1020796--1020821 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1020786 CATTTTCAAC
1020796 ATCACAAA
1 ATCACAAA
1020804 ATCACAAA
1 ATCACAAA
1020812 ATCACAAA
1 ATCACAAA
1020820 AT
1 AT
1020822 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1029305 original size:51 final size:50
Alignment explanation
Indices: 1029229--1029328 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 50
1029219 CTTAGAATAT
* * *
1029229 GGGGTTGGAGTATCTCCGAGATGAAAAATTTAATATTTTT-GAAATAAAAAC
1 GGGGTTAGAATATCTCCGAGATG-AAAA-TCAATATTTTTGGAAATAAAAAC
*
1029280 GGGGTTAGAATATC-CCTGAGATGAAAATCGATATTTTTGGAAATAAAAA
1 GGGGTTAGAATATCTCC-GAGATGAAAATCAATATTTTTGGAAATAAAAA
1029329 TAGGGCTAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
49 9 0.21
50 16 0.37
51 18 0.42
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (50 bp):
GGGGTTAGAATATCTCCGAGATGAAAATCAATATTTTTGGAAATAAAAAC
Found at i:1029382 original size:78 final size:78
Alignment explanation
Indices: 1029280--1029696 Score: 206
Period size: 79 Copynumber: 5.3 Consensus size: 78
1029270 AAATAAAAAC
* * *
1029280 GGGGTTAGAATATCCCTGAGATGAAAATCGATATT-TTT-GGAAATAAAAATAGGGCTAGAGTAT
1 GGGGTTAGAGTATCCCCGAGATGAAAAT--ATATTATTTCGAAAATAAAAATAGGGCTAGAGTAT
1029343 CCCCTT-GAAAATAAT
64 CCCCTTAG-AAATAAT
* * * * * * *
1029358 GGGGTTAGAGTACCCCCGAAATGAAAAATTTATTATTTCGAAAATTAAAATGGGGTTTGAGTATC
1 GGGGTTAGAGTATCCCCGAGATG-AAAATATATTATTTCGAAAATAAAAATAGGGCTAGAGTATC
1029423 CCCTTAGAAATAAT
65 CCCTTAGAAATAAT
* * * * * * * * * * **
1029437 GGGATTGGAGTATCCTCGAGATGAAAGATCTAATATTT-TAGAAAGAAAAACAAGG-TTGCAGCG
1 GGGGTTAGAGTATCCCCGAGATGAAA-ATATATTATTTCGA-AAATAAAAATAGGGCTAG-AGTA
* *
1029500 T-CCCTTCAAAAATAAC
63 TCCCCTT-AGAAATAAT
* ** * * * * * * *
1029516 GGGGTTGGAGTATCCTTGGGATGAAAATTTAGTAATTCAAAAATAAAAATTA-GGTTCGAGTATC
1 GGGGTTAGAGTATCCCCGAGATGAAAATATATTATTTCGAAAATAAAAA-TAGGGCTAGAGTATC
* * * *
1029580 TCCTCAAAAATAAC
65 CCCTTAGAAATAAT
* * * * * * *
1029594 GGGATTCGAGTATCCCCGAGATGAAAAATTTAATATTT-TAAAGATAAAAAT-GGGTTTAAAGTA
1 GGGGTTAGAGTATCCCCGAGATG-AAAATATATTATTTCGAAA-ATAAAAATAGGG-CTAGAGTA
*
1029657 T-CCCTTCAAAAATAAT
63 TCCCCTT-AGAAATAAT
* * *
1029673 GGGGTTGGAGTATCCTCGCGATGA
1 GGGGTTAGAGTATCCCCGAGATGA
1029697 GGAATTTAAT
Statistics
Matches: 264, Mismatches: 58, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
77 4 0.02
78 92 0.35
79 167 0.63
80 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (78 bp):
GGGGTTAGAGTATCCCCGAGATGAAAATATATTATTTCGAAAATAAAAATAGGGCTAGAGTATCC
CCTTAGAAATAAT
Found at i:1029474 original size:79 final size:79
Alignment explanation
Indices: 1029322--1029772 Score: 312
Period size: 79 Copynumber: 5.7 Consensus size: 79
1029312 ATTTTTGGAA
* * * * * * *
1029322 ATAAAAATAGGGCTAGAGTATCCCCTTGAAAATAATGGGGTTAGAGTACCCCCGAAATGAAAAAT
1 ATAAAAATA-GGTTTGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAAAT
*
1029387 TTATTATTTCGAAA-
65 TTAATATTTCGAAAG
* * * * *
1029401 ATTAAAATGGGGTTTGAGTATCCCCTTAGAAATAATGGGATTGGAGTATCCTCGAGATGAAAGAT
1 ATAAAAAT-AGGTTTGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAAAT
* *
1029466 CTAATATTTTAGAAAG
65 TTAATA-TTTCGAAAG
** * * *
1029482 A-AAAACA-AGG-TTGCAGCGT-CCCTTCAAAAATAACGGGGTTGGAGTATCCTTGGGATG-AAA
1 ATAAAA-ATAGGTTTG-AGTATCCCCTT-AAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAA
* * *
1029542 ATTTAGTAATTC-AAAA
63 ATTTAATATTTCGAAAG
* * * * * * *
1029558 ATAAAAATTAGGTTCGAGTATCTCCTCAAAAATAACGGGATTCGAGTATCCCCGAGATGAAAAAT
1 ATAAAAA-TAGGTTTGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAAAT
*
1029623 TTAATATTT-TAAAG
65 TTAATATTTCGAAAG
* * * **
1029637 ATAAAAATGGGTTTAAAGTAT-CCCTTCAAAAATAATGGGGTTGGAGTATCCTCGCGATGAGGAA
1 ATAAAAATAGGTTT-GAGTATCCCCTT-AAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAAA
* * *
1029701 TTTAATATTTTG-GAT
64 TTTAATATTTCGAAAG
* * * * * * *
1029716 ATAAAAGTAGGGTTGGAGTAT-CTCTTCGAAAATAACGGGGTTTGAGTATCCTTGAGA
1 ATAAAAATA-GGTTTGAGTATCCCCTT-AAAAATAATGGGGTTGGAGTATCCTCGAGA
1029773 AAAATTCGAT
Statistics
Matches: 287, Mismatches: 68, Indels: 34
0.74 0.17 0.09
Matches are distributed among these distances:
76 5 0.02
77 6 0.02
78 57 0.20
79 203 0.71
80 14 0.05
81 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (79 bp):
ATAAAAATAGGTTTGAGTATCCCCTTAAAAATAATGGGGTTGGAGTATCCTCGAGATGAAAAATT
TAATATTTCGAAAG
Found at i:1029696 original size:157 final size:156
Alignment explanation
Indices: 1029350--1029696 Score: 383
Period size: 157 Copynumber: 2.2 Consensus size: 156
1029340 TATCCCCTTG
* * * * * * * * *
1029350 AAAATAATGGGGTTAGAGTACCCCCGAAATGAAAAATTTATTATTTCGAAAATTAAAATGGGGTT
1 AAAATAATGGGGTTGGAGTATCCTCGAGATG-AAAATTTAGTAATTCAAAAATAAAAATGAGGTT
* * * * * * *
1029415 TGAGTATCCCCTTAGAAATAATGGGATTGGAGTATCCTCGAGATGAAAGATCTAATATTTTAGAA
65 CGAGTATCCCCTCAAAAATAACGGGATTCGAGTATCCCCGAGATGAAAAATCTAATATTTTA-AA
** *
1029480 AGAAAAACAAGGTTGCAGCGTCCCTTCA
129 AGAAAAACAAGGTTAAAGCATCCCTTCA
* * * *
1029508 AAAATAACGGGGTTGGAGTATCCTTGGGATGAAAATTTAGTAATTCAAAAATAAAAATTAGGTTC
1 AAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTAGTAATTCAAAAATAAAAATGAGGTTC
* *
1029573 GAGTATCTCCTCAAAAATAACGGGATTCGAGTATCCCCGAGATGAAAAATTTAATATTTT-AAAG
66 GAGTATCCCCTCAAAAATAACGGGATTCGAGTATCCCCGAGATGAAAAATCTAATATTTTAAAAG
* *
1029637 ATAAAA-ATGGGTTTAAAGTATCCCTTCA
131 A-AAAACA-AGG-TTAAAGCATCCCTTCA
*
1029665 AAAATAATGGGGTTGGAGTATCCTCGCGATGA
1 AAAATAATGGGGTTGGAGTATCCTCGAGATGA
1029697 GGAATTTAAT
Statistics
Matches: 156, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
155 6 0.04
156 6 0.04
157 120 0.77
158 24 0.15
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (156 bp):
AAAATAATGGGGTTGGAGTATCCTCGAGATGAAAATTTAGTAATTCAAAAATAAAAATGAGGTTC
GAGTATCCCCTCAAAAATAACGGGATTCGAGTATCCCCGAGATGAAAAATCTAATATTTTAAAAG
AAAAACAAGGTTAAAGCATCCCTTCA
Found at i:1032184 original size:20 final size:20
Alignment explanation
Indices: 1032159--1032199 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1032149 AATTGTAAGC
*
1032159 ATGTATCAATACATTTTCTT
1 ATGTATCAATACATTTCCTT
*
1032179 ATGTATCGATACATTTCCTT
1 ATGTATCAATACATTTCCTT
1032199 A
1 A
1032200 GCAGTATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.46
Consensus pattern (20 bp):
ATGTATCAATACATTTCCTT
Found at i:1032245 original size:21 final size:22
Alignment explanation
Indices: 1032219--1032274 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 22
1032209 AGGGTAGTTT
**
1032219 TGTATCAATACATTTTAGGT-A
1 TGTATCAATACATTTTAACTCA
*
1032240 TGTATCGATACA--TTAACTCA
1 TGTATCAATACATTTTAACTCA
1032260 TGTATCAATACATTT
1 TGTATCAATACATTT
1032275 ACTGTTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 11 0.39
22 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (22 bp):
TGTATCAATACATTTTAACTCA
Found at i:1032264 original size:20 final size:21
Alignment explanation
Indices: 1032239--1032292 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1032229 CATTTTAGGT
1032239 ATGTATCGATACATTAACT-C
1 ATGTATCGATACATTAACTGC
* * *
1032259 ATGTATCAATACATTTACTGT
1 ATGTATCGATACATTAACTGC
*
1032280 TTGTATCGATACA
1 ATGTATCGATACA
1032293 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTAACTGC
Found at i:1032286 original size:21 final size:21
Alignment explanation
Indices: 1032219--1032292 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
1032209 AGGGTAGTTT
*
1032219 TGTATCAATACATTTTA-GGTA
1 TGTATCAATACA-TTTACTGTA
* * *
1032240 TGTATCGATACATTAACT-CA
1 TGTATCAATACATTTACTGTA
*
1032260 TGTATCAATACATTTACTGTT
1 TGTATCAATACATTTACTGTA
*
1032281 TGTATCGATACA
1 TGTATCAATACA
1032293 AATTGTAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
20 20 0.48
21 22 0.52
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATCAATACATTTACTGTA
Found at i:1035532 original size:13 final size:13
Alignment explanation
Indices: 1035514--1035539 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1035504 ACATTATGCT
1035514 TTGTATCGATACA
1 TTGTATCGATACA
1035527 TTGTATCGATACA
1 TTGTATCGATACA
1035540 CGCTCATTGT
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):
TTGTATCGATACA
Found at i:1035571 original size:20 final size:19
Alignment explanation
Indices: 1035525--1035579 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1035515 TGTATCGATA
**
1035525 CATTGTATCGATACACGCT
1 CATTGTATCGATACATACT
1035544 CATTGTATCGATACATACT
1 CATTGTATCGATACATACT
1035563 CATTTGTATCGATACAT
1 CA-TTGTATCGATACAT
1035580 GAAACTAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:1036481 original size:29 final size:30
Alignment explanation
Indices: 1036439--1036790 Score: 167
Period size: 30 Copynumber: 11.7 Consensus size: 30
1036429 TCACCCTTCA
*
1036439 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
1 AAAGCCCAAAAGTCAGTGGCACTCTTTTCC
* *
1036468 AAAGCCCAAAAGTCAGTGGCACCCTTTTCA
1 AAAGCCCAAAAGTCAGTGGCACTCTTTTCC
**
1036498 AAAGCCCACAAA-TTGGTGGCAAC-C--TT-C
1 AAAGCCCA-AAAGTCAGTGGC-ACTCTTTTCC
*
1036525 AAAGCCCACAAAG-CAGTGGCACCCTTTTCC
1 AAAGCCCA-AAAGTCAGTGGCACTCTTTTCC
* * *
1036555 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCAAAAGTCAGTGGCACTCTTTTCC
* * * * *
1036584 AAAGTCCATAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCAAAAGTCAGTGGCACTC-TTTTC----C
* * * * *
1036619 TAAGCTCACAACTCTA-TAGCACTCTTTTTCC
1 AAAGCCCAAAAGTC-AGTGGCACTC-TTTTCC
* * * *
1036650 TTTTAAG-CCAACAAGTTAGTGGCACCCTTTTCA
1 ---AAAGCCCAA-AAGTCAGTGGCACTCTTTTCC
* * *
1036683 AAAGCCCACAAGTTAGTGGCATCTCTTTTCA
1 AAAGCCCAAAAGTCAGTGGCA-CTCTTTTCC
* *
1036714 AAAGCCCATAAGTCAGTGGCAAC-C-TTT-A
1 AAAGCCCAAAAGTCAGTGGC-ACTCTTTTCC
* * *
1036742 AAAGCCCACAAGTCAGTGGCAATC-TTT-A
1 AAAGCCCAAAAGTCAGTGGCACTCTTTTCC
*
1036770 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCAAAAGTCAGTGGCA
1036791 ACCTTCAAAA
Statistics
Matches: 259, Mismatches: 39, Indels: 51
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.01
27 19 0.07
28 48 0.19
29 51 0.20
30 54 0.21
31 40 0.15
32 1 0.00
33 8 0.03
34 13 0.05
35 23 0.09
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (30 bp):
AAAGCCCAAAAGTCAGTGGCACTCTTTTCC
Found at i:1036502 original size:30 final size:30
Alignment explanation
Indices: 1036435--1036810 Score: 238
Period size: 28 Copynumber: 12.6 Consensus size: 30
1036425 TTCCTCACCC
*
1036435 TTCAAAAGCCCACAAGTCAGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* *
1036464 TTCCAAAGCCCAAAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* ** *
1036494 TTCAAAAGCCCACAAATTGGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
1036522 TTC-AAAGCCCACAAAG-CAGTGGCACCCTT
1 TTCAAAAGCCCAC-AAGTCAGTGGCACCCTT
** * *
1036551 TTCCGAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * * *
1036580 TTCCAAAGTCCATAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * *
1036611 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAC-CCTT
** * *
1036646 TTCCTTTTAAGCCAACAAGTTAGTGGCACCCTT
1 TT-C--AAAAGCCCACAAGTCAGTGGCACCCTT
* *
1036679 TTCAAAAGCCCACAAGTTAGTGGCATCTCTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-CCCTT
* *
1036710 TTCAAAAGCCCATAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
**
1036739 TT-AAAAGCCCACAAGTCAGTGGCAATC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1036767 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
1036794 TTCAAAAGCACACAAGT
1 TTCAAAAGCCCACAAGT
1036811 TGATGCAATC
Statistics
Matches: 281, Mismatches: 49, Indels: 35
0.77 0.13 0.10
Matches are distributed among these distances:
27 19 0.07
28 68 0.24
29 55 0.20
30 60 0.21
31 32 0.11
32 1 0.00
33 6 0.02
34 17 0.06
35 22 0.08
36 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:1036542 original size:57 final size:59
Alignment explanation
Indices: 1036435--1036810 Score: 232
Period size: 59 Copynumber: 6.3 Consensus size: 59
1036425 TTCCTCACCC
* * *
1036435 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCAAAAGTCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCAAAAGTCAGTGGCACCCTT
* *
1036494 TTCAAAAGCCCACAAATTGGTGGCAAC-CTT-CAAAGCCCACAAAG-CAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCA-AAAGTCAGTGGCACCCTT
** * * * * * * *
1036551 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCATAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCAAAAGTCAGTGGCAC-CCTT
** * * ** * * *
1036611 TTCTTTTGTAAGCTCACAACTCTATAGC-ACTCTTTTTCCTTTTAAG-CCAACAAGTTAGTGGCA
1 TTC----AAAAGCCCACAAGTCGGTGGCAACTC---TTCC---AAAGCCCAA-AAGTCAGTGGCA
1036674 CCCTT
55 CCCTT
** * * * *
1036679 TTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAAGCCCATAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCGGTGGCAACTC--TTCCAAAGCCCAAAAGTCAGTGGCACCCTT
* ** * *
1036739 TT-AAAAGCCCACAAGTCAGTGGCAA-TCTTTAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCAAAAGTCAGTGGCACCCTT
*
1036794 TTCAAAAGCACACAAGT
1 TTCAAAAGCCCACAAGT
1036811 TGATGCAATC
Statistics
Matches: 248, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
55 2 0.01
56 39 0.16
57 44 0.18
58 12 0.05
59 60 0.24
60 9 0.04
61 16 0.06
62 3 0.01
63 2 0.01
64 32 0.13
65 3 0.01
66 4 0.02
68 9 0.04
69 13 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCGGTGGCAACTCTTCCAAAGCCCAAAAGTCAGTGGCACCCTT
Found at i:1036754 original size:28 final size:29
Alignment explanation
Indices: 1036654--1036836 Score: 196
Period size: 28 Copynumber: 6.3 Consensus size: 29
1036644 TTTTCCTTTT
* * *
1036654 AAGCCAACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTT-AA
* *
1036684 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTT-AA
*
1036715 AAGCCCATAAGTCAGTGGCAACC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
1036743 AAGCCCACAAGTCAGTGGCAATC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
1036771 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* *
1036799 AAGCACACAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CCTTTTAA
1036828 AAGCCCACA
1 AAGCCCACA
1036837 CAAGTTGGTG
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
27 5 0.04
28 68 0.50
29 15 0.11
30 21 0.15
31 27 0.20
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTAA
Found at i:1036848 original size:87 final size:86
Alignment explanation
Indices: 1036654--1036836 Score: 203
Period size: 87 Copynumber: 2.1 Consensus size: 86
1036644 TTTTCCTTTT
* * ** * *
1036654 AAGCCAACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAAGC
1 AAGCCCACAAGTCAGTGGCAATC-TTT-AAAAGCCCACAAGTCAGTGGCAACTC-TTTCAAAAGC
* *
1036719 CCATAAGTCAGTGGCAACCTTTAA
63 ACACAAGTCAGTGGCAACCTTTAA
1036743 AAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCAAC-C-TTCAAAAGCACA
1 AAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCAACTCTTTCAAAAGCACA
*
1036806 CAAGT-TGAT-GCAATCCTTTTAA
66 CAAGTCAG-TGGCAA-CC-TTTAA
1036828 AAGCCCACA
1 AAGCCCACA
1036837 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
83 5 0.06
84 18 0.22
85 14 0.17
86 1 0.01
87 22 0.27
88 3 0.04
89 19 0.23
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (86 bp):
AAGCCCACAAGTCAGTGGCAATCTTTAAAAGCCCACAAGTCAGTGGCAACTCTTTCAAAAGCACA
CAAGTCAGTGGCAACCTTTAA
Found at i:1036931 original size:52 final size:50
Alignment explanation
Indices: 1036858--1037142 Score: 310
Period size: 52 Copynumber: 5.9 Consensus size: 50
1036848 CGTCTTCTTC
* *
1036858 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* * *
1036910 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* * *
1036954 -AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
* *
1037005 TAAGTCCTATATCGCTGGCCTTGAATCAACACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
*
1037049 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
1037100 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1037143 CATCTTTAAC
Statistics
Matches: 194, Mismatches: 21, Indels: 36
0.77 0.08 0.14
Matches are distributed among these distances:
43 71 0.37
45 2 0.01
46 2 0.01
47 3 0.02
48 1 0.01
50 4 0.02
52 111 0.57
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:1037026 original size:95 final size:95
Alignment explanation
Indices: 1036859--1037141 Score: 471
Period size: 95 Copynumber: 3.0 Consensus size: 95
1036849 GTCTTCTTCT
* *
1036859 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATGT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCCTATAT
* *
1036922 AGCTAGCCTTGAATCAGCACATTGGCACCTCC
64 CGCTGGCCTTGAATCAGCACATTGGCACCTCC
*
1036954 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCTATATCG
*
1037019 CTGGCCTTGAATCAACACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
*
1037049 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCCTTAAGTCCTATATCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCTATATCG
1037114 CTGGCCTTGAATCAGCACATTGGCACCT
66 CTGGCCTTGAATCAGCACATTGGCACCT
1037142 TCATCTTTAA
Statistics
Matches: 177, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 2 0.01
95 173 0.98
96 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCTTAAGTCCTATATCG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:1038016 original size:13 final size:13
Alignment explanation
Indices: 1037998--1038022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1037988 CATAAAGTGT
1037998 TGTATCGATACAA
1 TGTATCGATACAA
1038011 TGTATCGATACA
1 TGTATCGATACA
1038023 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:1038020 original size:33 final size:33
Alignment explanation
Indices: 1037978--1038044 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1037968 TTCAACGATT
1037978 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1038011 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1038044 T
1 T
1038045 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1046020 original size:79 final size:79
Alignment explanation
Indices: 1045889--1046056 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
1045879 GACGGGGCTA
* * * * ***
1045889 GAGTACCCCTGATTATGGAAAATCGGTGTTCTAGAAATGAAATCAAGGTTGGAGTATCCCCTTGG
1 GAGTATCCCTAATTATAGAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCCCTCAA
1045954 AAATAACAGGGTTG
66 AAATAACAGGGTTG
* * *
1045968 GAGTATCCCTAATTATAGAAAATTGGTGTT-TTGAAAATAAAATCAGGGTTGGAGTATCCCCTCA
1 GAGTATCCCTAATTATAGAAAATCGGTGTTCTAG-AAATAAAATCAAGGTTGGAGTATCCCCTCA
*
1046032 AAAATAACGGGGTTG
65 AAAATAACAGGGTTG
1046047 GAGTATCCCT
1 GAGTATCCCT
1046057 GCGAAAATAA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.03
79 75 0.97
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (79 bp):
GAGTATCCCTAATTATAGAAAATCGGTGTTCTAGAAATAAAATCAAGGTTGGAGTATCCCCTCAA
AAATAACAGGGTTG
Found at i:1046047 original size:28 final size:29
Alignment explanation
Indices: 1046013--1046084 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 29
1046003 AATAAAATCA
1046013 GGGTTGGAGTATCCCCT-CAAAAATAACG
1 GGGTTGGAGTATCCCCTGCAAAAATAACG
*
1046041 GGGTTGGAGTAT-CCCTGCGAAAATAACG
1 GGGTTGGAGTATCCCCTGCAAAAATAACG
1046069 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1046085 GATTGTGAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 34 0.83
29 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCTGCAAAAATAACG
Found at i:1046124 original size:79 final size:79
Alignment explanation
Indices: 1046040--1046482 Score: 638
Period size: 79 Copynumber: 5.6 Consensus size: 79
1046030 CAAAAATAAC
*
1046040 GGGGTTGGAGTAT-CCCTGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 GGGGTTGGAGTATCCCCT-CGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
1046104 TTTAGGAATAAAACT
65 TTTAGGAATAAAGCT
* * * *
1046119 AGGGTTGGAGTATCCCCTCGGAAATAATGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATACT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1046184 TTAGGAATAAAGCT
66 TTAGGAATAAAGCT
*
1046198 GGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
* *
1046263 TTAGAAATAAA-AT
66 TTAGGAATAAAGCT
* ** * * *
1046276 CGGGGTCGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATTCCCGATTATGAGAAATCAATAG
1 -GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* *
1046341 TTTAGAAATAAAGCC
65 TTTAGGAATAAAGCT
* * * *
1046356 GGGATTGGAGTATCCGCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
*
1046421 TTAGGAATAAAGCC
66 TTAGGAATAAAGCT
* *
1046435 GGGGTTGGAGTATCCCCTTGGAAATAACGGAGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1046483 GATTAACGGG
Statistics
Matches: 325, Mismatches: 36, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
78 1 0.00
79 320 0.98
80 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
TTAGGAATAAAGCT
Found at i:1046497 original size:27 final size:29
Alignment explanation
Indices: 1046434--1046509 Score: 104
Period size: 27 Copynumber: 2.7 Consensus size: 29
1046424 GGAATAAAGC
*
1046434 CGGGGTTGGAGTATCCCC-TTGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
* *
1046462 CGGAGTTGGAGTATCCCCGAT-G-ATTAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
1046489 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1046510 TATGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 24 0.56
28 18 0.42
29 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCGATGGAAATAA
Found at i:1046673 original size:51 final size:50
Alignment explanation
Indices: 1046489--1046675 Score: 259
Period size: 51 Copynumber: 3.7 Consensus size: 50
1046479 CGATGATTAA
*
1046489 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTT-GAAATAAAAC
*
1046541 CGGAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTG-AAATAAAAC
* * * *
1046592 CGGGGTTAGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTT-GAAATAAAAC
*
1046643 CGGGGTTGGAGTACCCCCGATTATGAAAAATTG
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTG
1046676 AGAAACTTAA
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.01
51 84 0.71
52 34 0.29
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAATAAAAC
Found at i:1048997 original size:13 final size:13
Alignment explanation
Indices: 1048981--1049030 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
1048971 TACATTGTAA
1048981 AATGTATCGATAC
1 AATGTATCGATAC
1048994 AATG-A--G-TA-
1 AATGTATCGATAC
1049002 A-TGTATCGATAC
1 AATGTATCGATAC
1049014 AATGTATCGATAC
1 AATGTATCGATAC
1049027 AATG
1 AATG
1049031 AGCAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 19 0.61
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1049023 original size:33 final size:33
Alignment explanation
Indices: 1048981--1049050 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1048971 TACATTGTAA
* *
1048981 AATGTATCGATACAATGAGTAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATATATCGATAC
1049014 AATGTATCGATACAATGAGCAATATATCGATAC
1 AATGTATCGATACAATGAGCAATATATCGATAC
1049047 AATG
1 AATG
1049051 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATATATCGATAC
Found at i:1049023 original size:53 final size:52
Alignment explanation
Indices: 1048961--1049100 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 52
1048951 AAAATGCCTG
*
1048961 AATGTATCGATACATTGTAAAATGTATCGATACAATG-AGTAATGTATCGATAC
1 AATGTATCGATACATTG-AAAATGTATCGATACAATGCA-AAATGTATCGATAC
* * * *
1049014 AATGTATCGATACAATGAGCAATATATCGATACAATGCAAAATGTATCGATAT
1 AATGTATCGATACATTGA-AAATGTATCGATACAATGCAAAATGTATCGATAC
1049067 AATGTATCGATACATTGAATAATGTATCGATACA
1 AATGTATCGATACATTGAA-AATGTATCGATACA
1049101 TTTCCTTGGC
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.01
53 74 0.97
54 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (52 bp):
AATGTATCGATACATTGAAAATGTATCGATACAATGCAAAATGTATCGATAC
Found at i:1049049 original size:13 final size:13
Alignment explanation
Indices: 1049001--1049030 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1048991 TACAATGAGT
1049001 AATGTATCGATAC
1 AATGTATCGATAC
1049014 AATGTATCGATAC
1 AATGTATCGATAC
1049027 AATG
1 AATG
1049031 AGCAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1049072 original size:13 final size:13
Alignment explanation
Indices: 1049054--1049078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049044 TACAATGCAA
1049054 AATGTATCGATAT
1 AATGTATCGATAT
1049067 AATGTATCGATA
1 AATGTATCGATA
1049079 CATTGAATAA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:1049102 original size:20 final size:19
Alignment explanation
Indices: 1048961--1049100 Score: 106
Period size: 20 Copynumber: 7.7 Consensus size: 19
1048951 AAAATGCCTG
*
1048961 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1048981 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGA-A
1049001 AATGTATCGATAC------
1 AATGTATCGATACAATGAA
*
1049014 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
1049034 AATATATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1049054 AATGTATCGAT---AT---
1 AATGTATCGATACAATGAA
*
1049067 AATGTATCGATACATTGAA
1 AATGTATCGATACAATGAA
1049086 TAATGTATCGATACA
1 -AATGTATCGATACA
1049101 TTTCCTTGGC
Statistics
Matches: 98, Mismatches: 6, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
13 24 0.24
16 1 0.01
17 2 0.02
19 1 0.01
20 69 0.70
21 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1052842 original size:62 final size:61
Alignment explanation
Indices: 1052675--1052866 Score: 242
Period size: 61 Copynumber: 3.1 Consensus size: 61
1052665 ATGAAGTTGA
* * * * ** * * *
1052675 GAAGAGTGATAAAGATGCCAATATGCTGATTTAGGGCTAGTAATATTAGGCTTAAAAATGA
1 GAAGAATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGC
* *
1052736 GAATG-ATGATAAAGATGCTAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGC
1 GAA-GAATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGC
* *
1052797 GAAGAATGATAAGGAATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGC
1 GAAGAATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGC
1052859 GAAGAATG
1 GAAGAATG
1052867 TCAATGTGCT
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
60 1 0.01
61 59 0.52
62 53 0.47
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (61 bp):
GAAGAATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGC
Found at i:1052888 original size:52 final size:52
Alignment explanation
Indices: 1052801--1052990 Score: 188
Period size: 52 Copynumber: 3.6 Consensus size: 52
1052791 AGATGCGAAG
* * * *
1052801 AATGATAAGGAATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-AA
1 AATGA-AAAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTGAA
** * * * * *
1052853 AGATGCGAAGAATGTCAATGTGCTGATTCACGGCCAGTGACATTAGACTTGAA
1 A-ATGAAAAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTGAA
* *
1052906 AATGAAAAGAATGCCAATGTGTTGATTCAAGGCCAATGACATTGGGCAT-AA
1 AATGAAAAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTGAA
* *
1052957 GAATGTTAAAG-ATGCCAATATGCTGATTCAAGGC
1 -AATG-AAAAGAATGCCAATGTGCTGATTCAAGGC
1052991 TAGCAATTTC
Statistics
Matches: 111, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
51 2 0.02
52 99 0.89
53 10 0.09
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
AATGAAAAGAATGCCAATGTGCTGATTCAAGGCCAATGACATTGGGCTTGAA
Found at i:1053107 original size:32 final size:32
Alignment explanation
Indices: 1053067--1053157 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 32
1053057 AAGAGAGATG
* *
1053067 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTA
*
1053099 CTACCAACTTGTGTGGGCTTTAGAAAGGGTTA
1 CCACCAACTTGTGTGGGCTTTAGAAAGGGTTA
*
1053131 CCACCAAATTGTGTGGGC-TTA-AAAGGG
1 CCACCAACTTGTGTGGGCTTTAGAAAGGG
1053158 AAAGGTGCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.11
31 3 0.06
32 45 0.83
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (32 bp):
CCACCAACTTGTGTGGGCTTTAGAAAGGGTTA
Found at i:1053195 original size:27 final size:27
Alignment explanation
Indices: 1053158--1053456 Score: 192
Period size: 27 Copynumber: 10.2 Consensus size: 27
1053148 CTTAAAAGGG
*
1053158 AAAGG-TGCCACGAAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTA
*
1053184 AAAGGATGCCACAGAGTTGTGGACTTAAA
1 AAAGGATGCCACGGAGTTGTGGACTT--A
*
1053213 AAAGG-TGCCACAGAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTA
1053239 AAAGGGAAAAAGGTGCCACGGAGTTGTGGACTTA
1 AAA-GG----A--TGCCACGGAGTTGTGGACTTA
*
1053273 AAAGGAAAAGGTGCCATGGAGTTGTGGACTTA
1 AAAGG---A--TGCCACGGAGTTGTGGACTTA
* *
1053305 GAGAAGAGATGCCACTGAGTTATGGACTTAAACA
1 -A-AAG-GATGCCACGGAGTTGTGGACTT----A
* * *
1053339 AAAGG-TGTCATGGAGTTGTGGATTTAA
1 AAAGGATGCCACGGAGTTGTGGACTT-A
* *
1053366 AAAGG-TGCCATGGAGTTTTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTA
*
1053392 AAAGGAAAAGGTGCCATGGAGTTGTGGACTTA
1 AAAGG---A--TGCCACGGAGTTGTGGACTTA
* **
1053424 AAAGGGTGCCACTAAGTTGTGGACTTA
1 AAAGGATGCCACGGAGTTGTGGACTTA
1053451 AAAGGA
1 AAAGGA
1053457 AAAGGTGCCA
Statistics
Matches: 227, Mismatches: 22, Indels: 47
0.77 0.07 0.16
Matches are distributed among these distances:
26 15 0.07
27 66 0.29
28 20 0.09
29 6 0.03
30 32 0.14
31 1 0.00
32 55 0.24
33 4 0.02
34 27 0.12
35 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (27 bp):
AAAGGATGCCACGGAGTTGTGGACTTA
Found at i:1053264 original size:62 final size:61
Alignment explanation
Indices: 1053183--1053502 Score: 259
Period size: 59 Copynumber: 5.3 Consensus size: 61
1053173 TTGTGGACTT
* **
1053183 AAAAGGATGCCACAGAGTTGTGGACTT-AA-AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGA
1 AAAAGG-TGCCACGGAGTTGTGGACTTAAAGAAAAGGTGCCATGGAGTTGTGGACTT---AGGGA
*
1053246 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTTAGAG-
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAA-GAAAAGGTGCCATGGAGTTGTGGACTTAGGGA
* * * * * * *
1053308 AAGAGATGCCACTGAGTTATGGACTTAAACAAAAGGTGTCATGGAGTTGTGGA-TT---TA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAGAAAAGGTGCCATGGAGTTGTGGACTTAGGGA
* *
1053365 AAAAGGTGCCATGGAGTTTTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT----A
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAA-GAAAAGGTGCCATGGAGTTGTGGACTTAGGGA
* ** ** ** *
1053424 AAAGGGTGCCACTAAGTTGTGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTACACTTAGAG-
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAA-GAAAAGGTGCCATGGAGTTGTGGACTTAGGGA
* *
1053486 AAAAGATGCCACTGAGT
1 AAAAGGTGCCACGGAGT
1053503 CATGGAAAAG
Statistics
Matches: 215, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
57 21 0.10
58 3 0.01
59 74 0.34
60 24 0.11
61 3 0.01
62 55 0.26
63 9 0.04
64 2 0.01
66 24 0.11
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.23
Consensus pattern (61 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAGAAAAGGTGCCATGGAGTTGTGGACTTAGGGA
Found at i:1053264 original size:89 final size:89
Alignment explanation
Indices: 1053142--1053429 Score: 300
Period size: 89 Copynumber: 3.2 Consensus size: 89
1053132 CACCAAATTG
* * **
1053142 TGTGGGCTTAAAAGGG-AAAGGTGCCACGAAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGG
1 TGTGGACTTAAAAGGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGG
1053206 ACTTAA-AAAAGGTGCCACAGAGT
66 ACTTAAGAAAAGGTGCCACAGAGT
1053229 TGTGGACTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAG
1 TGTGGACTTAAAAGGG-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG---A--TGCCATGGAG
* * *
1053294 TTGTGGACTTAGAGAAGAGATGCCACTGAGT
60 TTGTGGACTTA-AGAAAAGGTGCCACAGAGT
* * * * * *
1053325 TATGGACTT-AAA--CAAAAGGTGTCATGGAGTTGTGGATTTAAAAAGG-TGCCATGGAGTTTTG
1 TGTGGACTTAAAAGGGAAAAGGTGCCACGGAGTTGTGGACTT-AAAAGGATGCCATGGAGTTGTG
**
1053386 GACTTAAAAGGAAAAGGTGCCATGGAGT
65 GACTT--AA-GAAAAGGTGCCACAGAGT
1053414 TGTGGACTTAAAAGGG
1 TGTGGACTTAAAAGGG
1053430 TGCCACTAAG
Statistics
Matches: 166, Mismatches: 19, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
87 34 0.20
88 1 0.01
89 53 0.32
90 3 0.02
92 24 0.14
93 6 0.04
94 19 0.11
95 4 0.02
96 22 0.13
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (89 bp):
TGTGGACTTAAAAGGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGG
ACTTAAGAAAAGGTGCCACAGAGT
Found at i:1053417 original size:59 final size:59
Alignment explanation
Indices: 1053245--1053502 Score: 306
Period size: 59 Copynumber: 4.3 Consensus size: 59
1053235 CTTAAAAGGG
*
1053245 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
* * * * *
1053304 AGAGAAGAGATGCCACTGAGTTATGGACTT-AAA-CAAAAGGTGTCATGGAGTTGTGGATTT
1 A-A-AA-AGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
*
1053364 AAAAAGGTGCCA-TGGAGTTTTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACT-GAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
* * ** **
1053423 AAAAGGGTGCCACTAAGTTGTGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTACACTT
1 AAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
*
1053482 AGAGAAAAGATGCCACTGAGT
1 --A-AAAAGGTGCCACTGAGT
1053503 CATGGAAAAG
Statistics
Matches: 168, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
56 1 0.01
57 19 0.11
58 5 0.03
59 76 0.45
60 27 0.16
61 6 0.04
62 34 0.20
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (59 bp):
AAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAGGTGCCATGGAGTTGTGGACTT
Found at i:1053482 original size:32 final size:32
Alignment explanation
Indices: 1053142--1053475 Score: 300
Period size: 32 Copynumber: 11.1 Consensus size: 32
1053132 CACCAAATTG
* * *
1053142 TGTGGGCTTAAAAGGGAAAGGTGCCACGAAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
*
1053174 TGTGGACTTAAAAGG---A--TGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
*
1053201 TGTGGACTT--AA--AAAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
1053229 TGTGGACTTAAAAGGGAAAAAGGTGCCACGGAGT
1 TGTGGACTTAAAA-GG-AAAAGGTGCCACGGAGT
*
1053263 TGTGGACTTAAAAGGAAAAGGTGCCATGGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
* * * *
1053295 TGTGGACTT-AGA-GAAGAGATGCCACTGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
* * * *
1053325 TATGGACTT-AAA-CAAAAGGTGTCATGGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
* *
1053355 TGTGGA-TT--TA--AAAAGGTGCCATGGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
* *
1053382 TTTGGACTTAAAAGGAAAAGGTGCCATGGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
**
1053414 TGTGGACTTAAAA-G----GGTGCCACTAAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
*
1053441 TGTGGACTTAAAAGGAAAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
1053473 TGT
1 TGT
1053476 ACACTTAGAG
Statistics
Matches: 252, Mismatches: 29, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
25 2 0.01
26 1 0.00
27 62 0.25
28 24 0.10
29 3 0.01
30 44 0.17
31 3 0.01
32 82 0.33
33 2 0.01
34 29 0.12
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (32 bp):
TGTGGACTTAAAAGGAAAAGGTGCCACGGAGT
Found at i:1053513 original size:22 final size:23
Alignment explanation
Indices: 1053485--1053532 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
1053475 TACACTTAGA
*
1053485 GAAA-AGATGCCACTGAGTCATG
1 GAAAGAGATGCCACTAAGTCATG
1053507 GAAAAGAGATGCCACTAAGTCATG
1 G-AAAGAGATGCCACTAAGTCATG
1053531 GA
1 GA
1053533 CTTTGAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 1 0.04
23 4 0.17
24 18 0.78
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.17
Consensus pattern (23 bp):
GAAAGAGATGCCACTAAGTCATG
Found at i:1053541 original size:30 final size:30
Alignment explanation
Indices: 1053507--1053648 Score: 149
Period size: 30 Copynumber: 4.5 Consensus size: 30
1053497 CTGAGTCATG
1053507 GAAAAGAGATGCCACTAAGTCATGGACTTT
1 GAAAAGAGATGCCACTAAGTCATGGACTTT
* * *
1053537 GAAAAGAGATGCCATTGAGTCGTGGACTTT
1 GAAAAGAGATGCCACTAAGTCATGGACTTT
* * * *
1053567 GGGAGAAAAAAAAGGTGCCACTAAATCATGGACTTA
1 ----G--AAAAGAGATGCCACTAAGTCATGGACTTT
*
1053603 GAAAAGAGATGCCACTGAGTCATGGACTTT
1 GAAAAGAGATGCCACTAAGTCATGGACTTT
*
1053633 GAAAATAGATGCCACT
1 GAAAAGAGATGCCACT
1053649 GAATCGTGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
30 66 0.73
32 1 0.01
34 1 0.01
36 22 0.24
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.22
Consensus pattern (30 bp):
GAAAAGAGATGCCACTAAGTCATGGACTTT
Found at i:1053649 original size:30 final size:30
Alignment explanation
Indices: 1053507--1053665 Score: 140
Period size: 30 Copynumber: 5.1 Consensus size: 30
1053497 CTGAGTCATG
*
1053507 GAAAAGAGATGCCACT-AAGTCATGGACTTT
1 GAAAAGAGATGCCACTGAA-TCATGGACTTA
* * *
1053537 GAAAAGAGATGCCATTGAGTCGTGGACTTTGGGA
1 GAAAAGAGATGCCACTGAATCATGGAC-TT---A
* * *
1053571 GAAAAAAAAGGTGCCACTAAATCATGGACTTA
1 G--AAAAGAGATGCCACTGAATCATGGACTTA
* *
1053603 GAAAAGAGATGCCACTGAGTCATGGACTTT
1 GAAAAGAGATGCCACTGAATCATGGACTTA
* * *
1053633 GAAAATAGATGCCACTGAATCGTGGTCTTA
1 GAAAAGAGATGCCACTGAATCATGGACTTA
1053663 GAA
1 GAA
1053666 GGGTGCCACA
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
30 74 0.73
31 3 0.03
32 2 0.02
34 1 0.01
35 2 0.02
36 20 0.20
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (30 bp):
GAAAAGAGATGCCACTGAATCATGGACTTA
Found at i:1059429 original size:38 final size:40
Alignment explanation
Indices: 1059363--1059442 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
1059353 TTTTATTTCT
* *
1059363 CCCTTAATCAAAATAATTTTAACAAATTTATACATTCTCC
1 CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
* * *
1059403 CCCTTAAT-AAGATAATTGTAGC-AATTTACGCATTCTCC
1 CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
1059441 CC
1 CC
1059443 TTTATCTCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 16 0.46
39 11 0.31
40 8 0.23
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (40 bp):
CCCTTAATCAAAATAATTGTAACAAATTTACACATTCTCC
Found at i:1059488 original size:21 final size:21
Alignment explanation
Indices: 1059447--1059490 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1059437 CTCCCCTTTA
* *
1059447 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1059468 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1059489 TC
1 TC
1059491 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1061313 original size:13 final size:13
Alignment explanation
Indices: 1061295--1061333 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1061285 ATAATCACCC
1061295 TGTATCGATACAA
1 TGTATCGATACAA
1061308 TGTATCGATACAA
1 TGTATCGATACAA
1061321 TGTATCGATACAA
1 TGTATCGATACAA
1061334 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1065269 original size:21 final size:21
Alignment explanation
Indices: 1065240--1065284 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1065230 AAGTTTTCAT
*
1065240 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1065260 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1065282 TTT
1 TTT
1065285 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1067521 original size:13 final size:13
Alignment explanation
Indices: 1067503--1067528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1067493 CAATTTTTTG
1067503 TGTATCGATACAT
1 TGTATCGATACAT
1067516 TGTATCGATACAT
1 TGTATCGATACAT
1067529 ACTTGCTGTA
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:1073307 original size:21 final size:21
Alignment explanation
Indices: 1073278--1073319 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1073268 TTATTAAAAA
*
1073278 AATAGTTAAATAAAAAATAAT
1 AATAATTAAATAAAAAATAAT
**
1073299 AATAATTAAATATTAAATAAT
1 AATAATTAAATAAAAAATAAT
1073320 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATTAAATAAAAAATAAT
Found at i:1073319 original size:15 final size:15
Alignment explanation
Indices: 1073277--1073325 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1073267 TTTATTAAAA
*
1073277 AAATAGTTAAATAA-A
1 AAATA-TTAAATAATT
*
1073292 AAATAAT-AATAATT
1 AAATATTAAATAATT
1073306 AAATATTAAATAATT
1 AAATATTAAATAATT
1073321 AAATA
1 AAATA
1073326 AAAAAGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 5 0.17
14 7 0.24
15 17 0.59
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAATATTAAATAATT
Found at i:1077060 original size:22 final size:22
Alignment explanation
Indices: 1077018--1077060 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1077008 TTTATTACTT
*
1077018 TTTTTCAATATACGTTTTTTTA
1 TTTTTCAATATACCTTTTTTTA
*
1077040 TTTTTCACTA-ACCTTTATTTT
1 TTTTTCAATATACCTTT-TTTT
1077061 TTCTTTGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTTCAATATACCTTTTTTTA
Found at i:1078836 original size:42 final size:42
Alignment explanation
Indices: 1078777--1078874 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
1078767 AAAATCTTCA
* * *
1078777 TTGACCTTGGAGACTTTCTTACCCTTAGTCTG-TCTGTCGGCT
1 TTGACCTTGGAGACTTTCTTACCATCAGTCCGCT-TGTCGGCT
*
1078819 TTGACCTTGGAGACTTTCTTACCATCAGTCCGCTTGTCGGTT
1 TTGACCTTGGAGACTTTCTTACCATCAGTCCGCTTGTCGGCT
1078861 TTGACCTT-GAGACT
1 TTGACCTTGGAGACT
1078875 GCCTCATCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
41 6 0.12
42 44 0.86
43 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.39
Consensus pattern (42 bp):
TTGACCTTGGAGACTTTCTTACCATCAGTCCGCTTGTCGGCT
Found at i:1080568 original size:13 final size:13
Alignment explanation
Indices: 1080550--1080603 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
1080540 CAATCGAAGC
1080550 AAAACAACAACCA
1 AAAACAACAACCA
1080563 AAAACAACAACC-
1 AAAACAACAACCA
*
1080575 AAAACAACAAGCA
1 AAAACAACAACCA
*
1080588 AAAACAATAACCA
1 AAAACAACAACCA
1080601 AAA
1 AAA
1080604 TAGCACGATC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
12 11 0.30
13 26 0.70
ACGTcount: A:0.70, C:0.26, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAACAACAACCA
Found at i:1080577 original size:25 final size:25
Alignment explanation
Indices: 1080549--1080603 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1080539 GCAATCGAAG
1080549 CAAAACAACAACCAAAAACAACAAC
1 CAAAACAACAACCAAAAACAACAAC
* *
1080574 CAAAACAACAAGCAAAAACAATAAC
1 CAAAACAACAACCAAAAACAACAAC
1080599 CAAAA
1 CAAAA
1080604 TAGCACGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.69, C:0.27, G:0.02, T:0.02
Consensus pattern (25 bp):
CAAAACAACAACCAAAAACAACAAC
Found at i:1084799 original size:13 final size:13
Alignment explanation
Indices: 1084781--1084805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1084771 CATATTGCTC
1084781 TGCATCGATACAA
1 TGCATCGATACAA
1084794 TGCATCGATACA
1 TGCATCGATACA
1084806 TGTTCATTGT
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:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
TGCATCGATACAA
Found at i:1091432 original size:79 final size:79
Alignment explanation
Indices: 1091336--1091520 Score: 250
Period size: 79 Copynumber: 2.3 Consensus size: 79
1091326 ACAACGGGAC
* * *
1091336 TGGAGTATCCCCAATTATGAAAAATCGGTATTTTGGAAATAAAATC-AGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGGTATTTTGAAAATAAAATCGA-AGTTGGAGTATCCCCT
*
1091400 CAGAAATAAC-AGGGT
65 CAAAAATAACGA-GGT
* *
1091415 TGGAGTATCCCTGATTAT-AGAAAATCGGTATTTTGAAAATAAAATCGAAGTTGGAGTATCCCTT
1 TGGAGTATCCCCGATTATGA-AAAATCGGTATTTTGAAAATAAAATCGAAGTTGGAGTATCCCCT
1091479 CAAAAATAACGAGGT
65 CAAAAATAACGAGGT
* *
1091494 TGAAGTATCCCCGATTGTGAAAAATCG
1 TGGAGTATCCCCGATTATGAAAAATCG
1091521 ATGCTTTAGA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 89 0.96
80 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAAAAATCGGTATTTTGAAAATAAAATCGAAGTTGGAGTATCCCCTC
AAAAATAACGAGGT
Found at i:1091555 original size:51 final size:51
Alignment explanation
Indices: 1091491--1091607 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1091481 AAAATAACGA
* *
1091491 GGTTGAAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATA-AGGCCGG
1 GGTTGAAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAGA-GCCGG
* * * *
1091542 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAGAGTCGG
1 GGTTGAAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAGAGCCGG
*
1091593 GGTTGGAGTATCCCC
1 GGTTGAAGTATCCCC
1091608 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAGAGCCGG
Found at i:1091630 original size:158 final size:159
Alignment explanation
Indices: 1091464--1091793 Score: 400
Period size: 158 Copynumber: 2.1 Consensus size: 159
1091454 TAAAATCGAA
1091464 GTTGGAGTATCCCTTC-A-AAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATCGA-TGCT
1 GTTGGAGTATCCC-TCGATAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAAT-GAGTGCT
* ** * * * * * *
1091526 TTAGAAATAAGGCCGGGGTT-GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAGAGT
64 TTAAAAATAAAACCGGAGTTAG-AGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAAT
*
1091590 CGGGGTTGGAGTATCCCCTCGAAAATAACGGG
128 CGAGGTTGGAGTATCCCCTCGAAAATAACGGG
* * * *
1091622 GTTGGAGTATCCC-CGATGAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
1 GTTGGAGTATCCCTCGATAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATGAGTGCTTT
* * *** * *
1091686 AAAAATAAAATCGGAGTTAGAGTATTCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATTGA
66 AAAAATAAAACCGGAGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGA
*
1091751 GGTTGGAGTATCCCCTCGAAAATAATGGG
131 GGTTGGAGTATCCCCTCGAAAATAACGGG
1091780 GTTGGAGTATCCCT
1 GTTGGAGTATCCCT
1091794 AATTGTGAAA
Statistics
Matches: 145, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
156 1 0.01
157 2 0.01
158 141 0.97
159 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (159 bp):
GTTGGAGTATCCCTCGATAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAATGAGTGCTTT
AAAAATAAAACCGGAGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAATCGA
GGTTGGAGTATCCCCTCGAAAATAACGGG
Done.