Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 4 of 141
Found at i:935461 original size:38 final size:37
Alignment explanation
Indices: 935386--935466 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
935376 AAGTATAAAA
* *
935386 ATAAAATTAAACTTAAAATATTAAAATTAAAAGAAATT
1 ATAAAATTAAACTTAAAATA-TAAAACTAAAAAAAATT
935424 ATAAAATTAGAA-TTAAAATA-AAAACTAAAACTAAAATT
1 ATAAAATTA-AACTTAAAATATAAAACTAAAA--AAAATT
935462 A-AAAA
1 ATAAAA
935467 GTGGCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
36 9 0.24
37 4 0.11
38 23 0.61
39 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (37 bp):
ATAAAATTAAACTTAAAATATAAAACTAAAAAAAATT
Found at i:935752 original size:25 final size:24
Alignment explanation
Indices: 935710--935757 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
935700 TGGGTCATTC
935710 TCCAAAATATTATCGTATGTAATT
1 TCCAAAATATTATCGTATGTAATT
* *
935734 TCCAAAACTTTTATTGTATGTAAT
1 TCCAAAA-TATTATCGTATGTAAT
935758 AGGCAATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (24 bp):
TCCAAAATATTATCGTATGTAATT
Found at i:936275 original size:24 final size:24
Alignment explanation
Indices: 936248--936293 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
936238 TCAAAGAAAT
*
936248 TTGAGTCGTATTTTGAGTTGTGTA
1 TTGAGTCGTATTTAGAGTTGTGTA
* *
936272 TTGAGTTGTCTTTAGAGTTGTG
1 TTGAGTCGTATTTAGAGTTGTG
936294 CTTGTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.04, G:0.30, T:0.50
Consensus pattern (24 bp):
TTGAGTCGTATTTAGAGTTGTGTA
Found at i:940281 original size:34 final size:34
Alignment explanation
Indices: 940217--940377 Score: 168
Period size: 34 Copynumber: 4.7 Consensus size: 34
940207 AGCATGACAT
* * *
940217 TTGCTACTGAATTGAAT-TGATATAACCATATTAA
1 TTGCTACTGTATTG-ATCTGTTATAAGCATATTAA
* *
940251 GTGCTACTGTATTGATCTGTCATAAGCATATTAA
1 TTGCTACTGTATTGATCTGTTATAAGCATATTAA
* *
940285 TTAG-TACTGTATTGATCTATTATGAGCATATTAA
1 TT-GCTACTGTATTGATCTGTTATAAGCATATTAA
* *
940319 TTGTTA-TCGTATTGATCTGTTATAAGAATATTAA
1 TTGCTACT-GTATTGATCTGTTATAAGCATATTAA
*
940353 TTGCTACCT-TAATGATCTGTTATAA
1 TTGCTA-CTGTATTGATCTGTTATAA
940378 ACATGTCATA
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
33 4 0.04
34 101 0.94
35 1 0.01
36 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (34 bp):
TTGCTACTGTATTGATCTGTTATAAGCATATTAA
Found at i:940574 original size:44 final size:44
Alignment explanation
Indices: 940488--940612 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
940478 TATCTGCAAA
* * * * * *
940488 TTTGTTTTGTATCCACAGCCGGAGGTAGATTTTATTTGCGAGAT
1 TTTGTTGTCTATCCATAGCCAGAGGTAGATTTTATCTACGAGAT
* *
940532 TTT-TCTGTCTATCCATAGCCAGAGGCAGATTCTATCTACGAGAT
1 TTTGT-TGTCTATCCATAGCCAGAGGTAGATTTTATCTACGAGAT
* **
940576 TTTGTTGTGTATCCATAGTTAGAGGTAGATTTTATCT
1 TTTGTTGTCTATCCATAGCCAGAGGTAGATTTTATCT
940613 GCAAGGTTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 64 0.97
45 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (44 bp):
TTTGTTGTCTATCCATAGCCAGAGGTAGATTTTATCTACGAGAT
Found at i:947928 original size:116 final size:117
Alignment explanation
Indices: 947772--948007 Score: 393
Period size: 116 Copynumber: 2.0 Consensus size: 117
947762 CACCTAATTC
* *
947772 CATGCATAAAAATCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAC
1 CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
947837 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
* * *
947889 CATGCATAAAAACCAA-TCCATTGTGTGCTTATCCACAACATAAACACTTAATTCAAACACCTAA
1 CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
* * *
947953 CTAATCATACCGTATTTATCACTTTCAATCCATTACAAGCATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
948005 CAT
1 CAT
948008 ACATTTCAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
116 96 0.86
117 15 0.14
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.26
Consensus pattern (117 bp):
CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
Found at i:951073 original size:29 final size:29
Alignment explanation
Indices: 951021--951126 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 29
951011 CAATTTTCGT
** ** *
951021 AAAAGGAAACCTTTGTGGCTATCTTTGTA
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* *
951050 AAAAGGATGTCTTTGTGGAAATCTATGTT
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* *
951079 TAAAGGAAGTCTTTATGGCAATATCTAT-TA
1 AAAAGGAAGTCTTTGTGG-AA-ATCTATGTA
951109 AAAAGGAAG-CATTTGTGG
1 AAAAGGAAGTC-TTTGTGG
951127 CGATTTCTGT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
29 38 0.62
30 17 0.28
31 6 0.10
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAAGGAAGTCTTTGTGGAAATCTATGTA
Found at i:977727 original size:16 final size:16
Alignment explanation
Indices: 977704--977746 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
977694 AAACAAAATT
977704 AAAATAAAATTACATA
1 AAAATAAAATTACATA
* *
977720 ATAAT-AAATTCCATA
1 AAAATAAAATTACATA
977735 AAAATTAAAATT
1 AAAA-TAAAATT
977747 TTTTGACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATAAAATTACATA
Found at i:985993 original size:18 final size:17
Alignment explanation
Indices: 985970--986005 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
985960 CAATAAAAAG
*
985970 AACTAAAAATAAAACTAA
1 AACTAAAAAGAAAA-TAA
985988 AACTAAAAAGAAAATAA
1 AACTAAAAAGAAAATAA
986005 A
1 A
986006 TAAACTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (17 bp):
AACTAAAAAGAAAATAA
Found at i:993381 original size:18 final size:18
Alignment explanation
Indices: 993355--993389 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
993345 GGGAGAAGAG
993355 GAGGCTGATGATGATGAC
1 GAGGCTGATGATGATGAC
*
993373 GAGGGTGATGATGATGA
1 GAGGCTGATGATGATGA
993390 TGATGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
GAGGCTGATGATGATGAC
Found at i:995179 original size:22 final size:22
Alignment explanation
Indices: 995136--995193 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
995126 GTGGTTTACA
* *
995136 GTTTAAGGGTT-GGGGTTTAAG
1 GTTTAAGTGTTAGGGGTTAAAG
995157 GTTTAAGTGTTAGGGGTTAAAG
1 GTTTAAGTGTTAGGGGTTAAAG
995179 GTTTATAGT-TTAGGG
1 GTTTA-AGTGTTAGGG
995194 TTTAGGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 10 0.30
22 20 0.61
23 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
GTTTAAGTGTTAGGGGTTAAAG
Found at i:995189 original size:29 final size:29
Alignment explanation
Indices: 995149--995220 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
995139 TAAGGGTTGG
*
995149 GGTTTAAGGTTTA-AGTGTTAGGGGTTAAA
1 GGTTTAAGGTTTAGGGT-TTAGGGGTTAAA
*
995178 GGTTTATA-GTTTAGGGTTTAGGGGTT-AG
1 GGTTTA-AGGTTTAGGGTTTAGGGGTTAAA
995206 GGTTTAAGGTTTAGG
1 GGTTTAAGGTTTAGG
995221 TGGTAGAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 1 0.03
28 14 0.37
29 20 0.53
30 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.40
Consensus pattern (29 bp):
GGTTTAAGGTTTAGGGTTTAGGGGTTAAA
Found at i:995210 original size:21 final size:21
Alignment explanation
Indices: 995186--995278 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
995176 AAGGTTTATA
995186 GTTTAGGGTTTAGGGGTTAGG
1 GTTTAGGGTTTAGGGGTTAGG
*
995207 GTTTAAGGTTTAGGTGG-TAGAG
1 GTTTAGGGTTTAGG-GGTTAG-G
* *
995229 GTTAAGGG-AT-GGGGTTTAGG
1 GTTTAGGGTTTAGGGG-TTAGG
* ** * *
995249 GGTTATTGTTTAGGGTTTAAG
1 GTTTAGGGTTTAGGGGTTAGG
995270 GTTTAGGGT
1 GTTTAGGGT
995279 CTTGGGTTTT
Statistics
Matches: 52, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
19 2 0.04
20 7 0.13
21 31 0.60
22 12 0.23
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGTTAGG
Found at i:995287 original size:14 final size:14
Alignment explanation
Indices: 994972--995278 Score: 92
Period size: 14 Copynumber: 21.9 Consensus size: 14
994962 TCTATAATTC
**
994972 AAGGTTTAGGGGAT
1 AAGGTTTAGGGTTT
994986 ATAGG-TTAGGGGTTT
1 A-AGGTTTA-GGGTTT
* *
995001 AAGGATTATGGTTT
1 AAGGTTTAGGGTTT
* *
995015 AAGGGTTGGGGTTT
1 AAGGTTTAGGGTTT
*
995029 AAGGTTTAGGTGTTG
1 AAGGTTTAGG-GTTT
*
995044 AAGGTTAAGGG-TT
1 AAGGTTTAGGGTTT
* *
995057 AGGGGTTTAGGTTTT
1 A-AGGTTTAGGGTTT
***
995072 ATA-GTTTATAATTT
1 A-AGGTTTAGGGTTT
* * * *
995086 ATGTTTTATGATTT
1 AAGGTTTAGGGTTT
*
995100 AAGGTTTAGGG--G
1 AAGGTTTAGGGTTT
* * *
995112 AGGGATTATGGTTT
1 AAGGTTTAGGGTTT
** **
995126 GTGGTTTACAGTTT
1 AAGGTTTAGGGTTT
* *
995140 AAGGGTTGGGGTTT
1 AAGGTTTAGGGTTT
*
995154 AAGGTTTA-AGTGTT
1 AAGGTTTAGGGT-TT
* * *
995168 AGGGGTTAAAGGTTT
1 A-AGGTTTAGGGTTT
995183 ATA-GTTTAGGGTTT
1 A-AGGTTTAGGGTTT
* *
995197 AGGGGTTAGGGTTT
1 AAGGTTTAGGGTTT
*
995211 AAGGTTTA-GGTGGT
1 AAGGTTTAGGGT-TT
* *
995225 AGAGGTTAAGGG-AT
1 A-AGGTTTAGGGTTT
** *
995239 GGGGTTTAGGGGTT
1 AAGGTTTAGGGTTT
**
995253 ATTGTTTAGGGTTT
1 AAGGTTTAGGGTTT
995267 AAGGTTTAGGGT
1 AAGGTTTAGGGT
995279 CTTGGGTTTT
Statistics
Matches: 207, Mismatches: 69, Indels: 34
0.67 0.22 0.11
Matches are distributed among these distances:
12 8 0.04
13 15 0.07
14 140 0.68
15 40 0.19
16 4 0.02
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
AAGGTTTAGGGTTT
Found at i:996194 original size:31 final size:32
Alignment explanation
Indices: 996133--996195 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
996123 TCTTTTCCCC
*
996133 TTATTTTATGCCTTTTGGTTCAATTCTTCCCTA
1 TTATTTTATGCCTTTTAGTT-AATTCTTCCCTA
* *
996166 TTATTTTCTGCCTTTTAGTT-TTTCTTCCCT
1 TTATTTTATGCCTTTTAGTTAATTCTTCCCT
996196 TGATTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
33 18 0.67
ACGTcount: A:0.11, C:0.22, G:0.08, T:0.59
Consensus pattern (32 bp):
TTATTTTATGCCTTTTAGTTAATTCTTCCCTA
Found at i:997673 original size:28 final size:28
Alignment explanation
Indices: 997642--997807 Score: 133
Period size: 29 Copynumber: 5.6 Consensus size: 28
997632 GGTTTAATGC
997642 GAATAAATTATCAATTTTTGATTTAATT
1 GAATAAATTATCAATTTTTGATTTAATT
* *
997670 GAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGT
1 GAATAAATTA----TCA--A-TTT-TT-GATTTAAT-T
997708 GAATAAATTATCAATTTTTGATTTAATT
1 GAATAAATTATCAATTTTTGATTTAATT
* *
997736 GAATAAA-T-T--ATGTTTGATTTTAAGT
1 GAATAAATTATCAATTTTTGA-TTTAATT
*
997761 GAATAAATTATCAATTTTTTATTTTAATT
1 GAATAAATTATCAATTTTTGA-TTTAATT
* *
997790 TAATAAATTATCGATTTT
1 GAATAAATTATCAATTTT
997808 ATATTTGATT
Statistics
Matches: 112, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
24 7 0.06
25 13 0.12
26 2 0.02
27 2 0.02
28 18 0.16
29 36 0.32
30 2 0.02
31 3 0.03
32 3 0.03
34 3 0.03
35 3 0.03
36 2 0.02
37 7 0.06
38 11 0.10
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (28 bp):
GAATAAATTATCAATTTTTGATTTAATT
Found at i:997676 original size:66 final size:66
Alignment explanation
Indices: 997593--997754 Score: 299
Period size: 66 Copynumber: 2.5 Consensus size: 66
997583 ATTTTATATA
*
997593 TTTGA-TTAATTGGATAAATTATGTTTGATTAGTTTATTCGGTTTAATGCGAATAAATTATCAAT
1 TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGCGAATAAATTATCAAT
997657 T
66 T
*
997658 TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
1 TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGCGAATAAATTATCAAT
997723 T
66 T
997724 TTTGATTTAATTGAATAAATTATGTTTGATT
1 TTTGATTTAATTGAATAAATTATGTTTGATT
997755 TTAAGTGAAT
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
65 5 0.05
66 89 0.95
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (66 bp):
TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGCGAATAAATTATCAAT
T
Found at i:997751 original size:24 final size:25
Alignment explanation
Indices: 997724--997771 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
997714 ATTATCAATT
*
997724 TTTGA-TTTAATTGAATAAATTATG
1 TTTGATTTTAAGTGAATAAATTATG
997748 TTTGATTTTAAGTGAATAAATTAT
1 TTTGATTTTAAGTGAATAAATTAT
997772 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TTTGATTTTAAGTGAATAAATTATG
Found at i:1001807 original size:44 final size:43
Alignment explanation
Indices: 1001732--1001899 Score: 187
Period size: 43 Copynumber: 3.9 Consensus size: 43
1001722 ACTTTTAGGC
*
1001732 GCATTTGTGA-ATAAAGCG-TCGCTAAAGGTCATGTTATTTAGCA
1 GCATTTGTGATA-AAAGCGCT-GCTAAAGGTCATGTTCTTTAGCA
*
1001775 GCATTTGTGATAAAAAGCGCTGCCAAAGGTCATGTTCTTTAGCA
1 GCATTTGTGAT-AAAAGCGCTGCTAAAGGTCATGTTCTTTAGCA
** * * * * *
1001819 GCGGTTGTTATTAAAGTGCCGCTAAAGGTCATGTTCTTTAGCG
1 GCATTTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAGCA
* * *
1001862 GCAATTGTGATAAAAGCGCTACTAAAAGTCATGTTCTT
1 GCATTTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTT
1001900 GAGCGTCGTT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
43 67 0.64
44 35 0.34
45 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GCATTTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAGCA
Found at i:1001918 original size:43 final size:41
Alignment explanation
Indices: 1001744--1001928 Score: 149
Period size: 43 Copynumber: 4.3 Consensus size: 41
1001734 ATTTGTGAAT
*
1001744 AAAGCG-TCGCTAAAGGTCATGTTATTTAGCAGC-ATTTGTGATAA
1 AAAGCGCT-GCTAAAGGTCATGTTCTTTAGC-GCGA-TTGT-AT-A
* * *
1001788 AAAGCGCTGCCAAAGGTCATGTTCTTTAGCAGCGGTTGTTATT
1 AAAGCGCTGCTAAAGGTCATGTTCTTTAGC-GCGATTG-TATA
* * *
1001831 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCAATTGTGATA
1 AAAGCGCTGCTAAAGGTCATGTTCTTTAGC-GCGATTGT-ATA
* * * *
1001874 AAAGCGCTACTAAAAGTCATGTTCTTGAGCGTCGTTTGCTATA
1 AAAGCGCTGCTAAAGGTCATGTTCTTTAGCG-CGATTG-TATA
*
1001917 AAAGCGCCGCTA
1 AAAGCGCTGCTA
1001929 TGAGTTTAGA
Statistics
Matches: 115, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 76 0.66
44 35 0.30
45 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (41 bp):
AAAGCGCTGCTAAAGGTCATGTTCTTTAGCGCGATTGTATA
Found at i:1014794 original size:45 final size:45
Alignment explanation
Indices: 1014718--1014860 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
1014708 ATGTTATTGT
* * * *
1014718 AAACAAGATTAAAACGAGTAACATCAAAGCTGAAAAACGA-TAT-G
1 AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAAC-ATTATGG
* *
1014762 ACAATATGAGTAAAACGAGTAAGACCATAGCTGAAAAACATTATGG
1 A-AACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
* * * * * * *
1014808 AAACATGATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGG
1 AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
*
1014853 CAACATGA
1 AAACATGA
1014861 ATTAAAATAA
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
44 2 0.02
45 77 0.95
46 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (45 bp):
AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
Found at i:1014879 original size:46 final size:45
Alignment explanation
Indices: 1014767--1014890 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
1014757 ATATGACAAT
* * * * *
1014767 ATGAGTAAAACGAGTAAGACCATAGCTGAAAAACATTATGGAAAC
1 ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
* * *
1014812 ATGATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGGCAAC
1 ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
*
1014857 ATGAATTAAAATAAGTAAGACTATAGTTGAAAGA
1 ATG-ATTAAAACAAGTAAGACTATAGTTGAAAGA
1014891 TGCTAAGGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 40 0.59
46 28 0.41
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (45 bp):
ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
Found at i:1014906 original size:46 final size:46
Alignment explanation
Indices: 1014809--1014906 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
1014799 ACATTATGGA
* *
1014809 AACATG-ATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGGC
1 AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
* * *
1014854 AACATGAATTAAAATAAGTAAGACTATAGTTGAAAGATGCTAAGGC
1 AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
*
1014900 ATCATGA
1 AACATGA
1014907 CGAAATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.23
Consensus pattern (46 bp):
AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
Found at i:1021547 original size:45 final size:46
Alignment explanation
Indices: 1021466--1021783 Score: 328
Period size: 45 Copynumber: 7.0 Consensus size: 46
1021456 TGTTATCATA
* * *
1021466 AACATG-ATTAAAATGGGTAAGACTATAGCTGAAAGACACTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * * * *
1021511 AATATG-GTTAAAACGAGTAAGACCATAGTTGGAAGACGCTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
1021556 AACATG-ATTAAAATGAGTAAGACCATAGCTAAAAGACGTTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
1021601 AACAAGAATTAAAATGAGTAAGACCATAGCTGAAAGACGTTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
1021647 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *** * * * * *
1021693 ATCAT-AAAGGAAGTTAGTAAGACCATGGTTGAAAGACGCAATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
1021738 ATCATTGTAATTAGAACT-A-T--GACCATAGCTGAAAGACGCTATGGC
1 AACA-TG-AATTA-AAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
1021783 A
1 A
1021784 TCCTTTGACA
Statistics
Matches: 229, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
45 137 0.60
46 85 0.37
47 1 0.00
48 3 0.01
49 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
Found at i:1021712 original size:91 final size:92
Alignment explanation
Indices: 1021466--1021785 Score: 318
Period size: 91 Copynumber: 3.5 Consensus size: 92
1021456 TGTTATCATA
* * * * * * * *
1021466 AACATG-ATTAAAATGGGTAAGACTATAGCTGAAAGACACTATGGCAAT-ATG-GTTAAAACGAG
1 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGC-ATCAAGAATGAAAATGAG
*
1021528 TAAGACCATAGTTGGAAGACGCTATGGC
65 TAAGACCATAGTTGAAAGACGCTATGGC
* * *
1021556 AACATG-ATTAAAATGAGTAAGACCATAGCTAAAAGACGTTATGGCAACAAGAATTAAAATGAGT
1 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAAGAATGAAAATGAGT
* *
1021620 AAGACCATAGCTGAAAGACGTTATGGC
66 AAGACCATAGTTGAAAGACGCTATGGC
* * * *
1021647 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGGCATCATA-AA-GGAAGTTAG
1 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCA-AGAATGAAAATGAG
* *
1021710 TAAGACCATGGTTGAAAGACGCAATGGC
65 TAAGACCATAGTTGAAAGACGCTATGGC
* * *
1021738 ATCATTGTAATTAGAACT-A-T--GACCATAGCTGAAAGACGCTATGGCATC
1 AACA-TG-AATTA-AAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATC
1021786 CTTTGACAGT
Statistics
Matches: 196, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
89 1 0.01
90 68 0.35
91 72 0.37
92 45 0.23
93 7 0.04
94 3 0.02
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (92 bp):
AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAAGAATGAAAATGAGT
AAGACCATAGTTGAAAGACGCTATGGC
Found at i:1021784 original size:45 final size:43
Alignment explanation
Indices: 1021531--1021785 Score: 135
Period size: 46 Copynumber: 5.7 Consensus size: 43
1021521 AAACGAGTAA
* * * *
1021531 GACCATAGTTGGAAGACGCTATGGCAACA-TG-ATTAAAATGAGT
1 GACCATAGCTGAAAGACGCTATGGCATCATTGAATTAGAAT-A-T
* * * * *
1021574 AAGACCATAGCTAAAAGACGTTATGGCAACA-AGAATTAAAATGAGT
1 --GACCATAGCTGAAAGACGCTATGGCATCATTGAATTAGAAT-A-T
* * *
1021620 AAGACCATAGCTGAAAGACGTTATGGCAACA-TGAATTAAAATGAGT
1 --GACCATAGCTGAAAGACGCTATGGCATCATTGAATTAGAAT-A-T
* * * *
1021666 AAGACCATAGCTAAAAGATGCTATGGCATCATAAAGGAAGTTAG--TAA
1 --GACCATAGCTGAAAGACGCTATGGCATCAT---TGAA-TTAGAATAT
* * *
1021713 GACCATGGTTGAAAGACGCAATGGCATCATTGTAATTAGAACTAT
1 GACCATAGCTGAAAGACGCTATGGCATCATTG-AATTAGAA-TAT
1021758 GACCATAGCTGAAAGACGCTATGGCATC
1 GACCATAGCTGAAAGACGCTATGGCATC
1021786 CTTTGACAGT
Statistics
Matches: 176, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.03
43 2 0.01
45 78 0.44
46 83 0.47
48 1 0.01
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (43 bp):
GACCATAGCTGAAAGACGCTATGGCATCATTGAATTAGAATAT
Found at i:1024468 original size:25 final size:24
Alignment explanation
Indices: 1024427--1024482 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
1024417 ATTAATTTAG
* *
1024427 ACATTTTTATTTTATTTTATTTTT
1 ACATTTTTATTTTATTTAATCTTT
* *
1024451 ATATTTTTGTTTTAATTTAATCTTT
1 ACATTTTTATTTT-ATTTAATCTTT
1024476 ACATTTT
1 ACATTTT
1024483 ACTTTTTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (24 bp):
ACATTTTTATTTTATTTAATCTTT
Found at i:1029081 original size:67 final size:64
Alignment explanation
Indices: 1029009--1029139 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 64
1028999 ATTTTTCATT
* *
1029009 TTTCA-TTGTAGAAATAATATTTATCTAATACATTTTAATTTTTAAAAAATAATGTTTTAAATAA
1 TTTCATTTGTAGAAATAATA--TATATAATACATTTTAA-TTTT-AAAAATAAAGTTTTAAATAA
1029073 TGA
62 TGA
* * *
1029076 TTTCATTTTTTAGAAATAATATATATAATACTTTTTAATTTTAAAAGTAAAGTTTTAAATAATG
1 TTTCA-TTTGTAGAAATAATATATATAATACATTTTAATTTTAAAAATAAAGTTTTAAATAATG
1029140 TAAAAGCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 20 0.35
66 4 0.07
67 20 0.35
69 13 0.23
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (64 bp):
TTTCATTTGTAGAAATAATATATATAATACATTTTAATTTTAAAAATAAAGTTTTAAATAATGA
Found at i:1032572 original size:21 final size:21
Alignment explanation
Indices: 1032548--1032619 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
1032538 CTATAGCATC
1032548 TTTTAGCTATGGTCTTACTCA
1 TTTTAGCTATGGTCTTACTCA
** * *
1032569 TTTTAATTCATGTTGCCATAACGTC-
1 TTTTAGCT-ATG--GTC-TTAC-TCA
1032594 TTTTAGCTATGGTCTTACTCA
1 TTTTAGCTATGGTCTTACTCA
1032615 TTTTA
1 TTTTA
1032620 ATTCATGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 5 0.14
24 5 0.14
25 9 0.24
26 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTTAGCTATGGTCTTACTCA
Found at i:1032695 original size:45 final size:45
Alignment explanation
Indices: 1032546--1032763 Score: 319
Period size: 45 Copynumber: 4.8 Consensus size: 45
1032536 TGCTATAGCA
*
1032546 TCTTTTAGCTATGGTCTTACTCATTTTAATTCATGTTGCCATAACG
1 TCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGTTGCCATAACG
* *
1032592 TCTTTTAGCTATGGTCTTACTCATTTTAATTCATGTTGCCATAACA
1 TCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGTTGCCATAACG
* * *
1032638 TTTTTCAACTATGGTCTTACTCATTTTAATCATGTTGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
* * **
1032683 TCTTCCAGCTATGGTCTTACTCATTTTAATCATATTGCCATAGTG
1 TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
*
1032728 TCTTTCAGCTATGGTCTTACCCATTTTAATCATGTT
1 TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTT
1032764 TACGATAACA
Statistics
Matches: 158, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 87 0.55
46 71 0.45
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
Found at i:1035803 original size:303 final size:302
Alignment explanation
Indices: 1035250--1035854 Score: 1084
Period size: 303 Copynumber: 2.0 Consensus size: 302
1035240 AATAACCTTG
*
1035250 CATTCCTACATCAAAACACATCCCAAACTGTTCAAGGAAGCATTATTGTAAAAAAAAATTCTTTC
1 CATTCCTACATCAAAACACATCCCAAACCGTTCAAGGAAGCATTATTGTAAAAAAAAATTCTTTC
* * *
1035315 CCCAATTCAGGTTGTGTCAACATCTGTACCTTTGTCAATACATTTTTCAACTGATCGAAATTTTG
66 CCCAATTCAGGCTGTGTCAACATCGGTACCTTTGTCAACACATTTTTCAACTGATCGAAATTTTG
* *
1035380 CTAACATTTCTCATACCAAACAAAGCCAACATCTTTCTATAATAGTGTTGTCATAGGTAAAACTG
131 CTAACATTTCTCATACCAAACAAAGCCAACATCTTTCTATAACAGTGTTGTCATAGGTAAAACTA
1035445 TTATCAAAAAATTCTTAACGAATCGTAGATAATATCTAGCTAATCCCAAGAAACTACGTACTTCA
196 TTATCAAAAAATTCTTAACGAATCGTAGATAATATCTAGCTAATCCCAAGAAACTACGTACTTCA
1035510 GAAACATTTCACGAAGGCTTCTAGTTCAGAATAGAAGAAATC
261 GAAACATTTCACGAAGGCTTCTAGTTCAGAATAGAAGAAATC
* *
1035552 CATTCCTGCATCAAAACACATCCCAAACCGTTCAAGGAAGCATTATTGTAAAGAAAAATTTCTTT
1 CATTCCTACATCAAAACACATCCCAAACCGTTCAAGGAAGCATTATTGTAAA-AAAAAATTCTTT
1035617 CCCCAATTCAGGCTGTGTCAACATCGGTACCTTTGTCAACACATTTTTCAACTGATCGAAATTTT
65 CCCCAATTCAGGCTGTGTCAACATCGGTACCTTTGTCAACACATTTTTCAACTGATCGAAATTTT
* * * *
1035682 GCTTACATTTCTCATACCAAACAAAGCCAACATCTTTCTGTAACATTGTTGTTATAGGTAAAACT
130 GCTAACATTTCTCATACCAAACAAAGCCAACATCTTTCTATAACAGTGTTGTCATAGGTAAAACT
*
1035747 ATTATCAAAAAATTCTTAACGAATCGTAGATAATATCTAGCTAATCCCAGGAAACTACGTACTTC
195 ATTATCAAAAAATTCTTAACGAATCGTAGATAATATCTAGCTAATCCCAAGAAACTACGTACTTC
1035812 AGAAACATTTCACGAAGGCTTCTAGTTCAGAATAGAAGAAATC
260 AGAAACATTTCACGAAGGCTTCTAGTTCAGAATAGAAGAAATC
1035855 TTAATCAGAT
Statistics
Matches: 289, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
302 50 0.17
303 239 0.83
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (302 bp):
CATTCCTACATCAAAACACATCCCAAACCGTTCAAGGAAGCATTATTGTAAAAAAAAATTCTTTC
CCCAATTCAGGCTGTGTCAACATCGGTACCTTTGTCAACACATTTTTCAACTGATCGAAATTTTG
CTAACATTTCTCATACCAAACAAAGCCAACATCTTTCTATAACAGTGTTGTCATAGGTAAAACTA
TTATCAAAAAATTCTTAACGAATCGTAGATAATATCTAGCTAATCCCAAGAAACTACGTACTTCA
GAAACATTTCACGAAGGCTTCTAGTTCAGAATAGAAGAAATC
Found at i:1042054 original size:11 final size:10
Alignment explanation
Indices: 1042034--1042061 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1042024 CATTTTCCCA
1042034 TTTTTCTTTT
1 TTTTTCTTTT
1042044 TTTTTCTTTT
1 TTTTTCTTTT
1042054 TTTTTCTT
1 TTTTTCTT
1042062 GTTACCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:1042808 original size:44 final size:45
Alignment explanation
Indices: 1042749--1042836 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 45
1042739 GAAGTATGAT
* *
1042749 TTGCTATTCTCAGTCTGCCCCACTGCTA-CTTCAGGGGGATAAGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTT-AGGGAGATAAGAC
* *
1042794 TTGCT-TTCTCAGTCTGCTCCGCTGCAACCTTAGGGAGATAAGA
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTTAGGGAGATAAGA
1042837 TCTGATGCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 30 0.79
45 8 0.21
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (45 bp):
TTGCTATTCTCAGTCTGCCCCACTGCAACCTTAGGGAGATAAGAC
Found at i:1043123 original size:44 final size:44
Alignment explanation
Indices: 1043074--1043741 Score: 196
Period size: 44 Copynumber: 15.2 Consensus size: 44
1043064 TACCTGGGGA
* *
1043074 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
1043118 AGATAAGA-TCTGTTA-TTTTCAACCTACTCCACTATTGCTTAGGG
1 AGATAAGATTC-G-TAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
1043162 AGATAGGACTAGT-GACTTAAATCTGCTTCC-CTACTACCT-GGG
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACTGCTTAGGG
*** ** *
1043204 AAAGATAAGATTCACCGTCTTCAATCTGCTTAACTACTGCATAGGG
1 --AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
1043250 AGATAAGA-TCTGTAATATTTAACCTACTCCAC-ACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
1043293 AGATAAGACTTAC--AATCTTCAACCTATTCCACTGCTG-TCCAAGG
1 AGATAAGA-TT-CGTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * ** * * * * *
1043337 AGATAGGACTAAT-GGCTTAAATCTGTTTCC-CTACTAG-ATGGGG
1 AGATAAGATTCGTAGTCTTCAATCTG-CTCCACTACT-GCTTAGGG
** * *
1043380 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGA
1 -AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * *
1043425 AGATAAGA-TCTGTAATCTTCAACCTATTCTACTGCTG-TCTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * * * * * * * *
1043469 AAATAGGACTAGT-GACTTAAATTTGCTTCC-CTACTACCTGGGG
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACTGCTTAGGG
** *
1043512 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
1043557 AGATAAGA-TCTGTAATTTTCAACCTACTCCA-TCACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACT-ACTGCTTAGGG
* * * ** *
1043601 AGATAAGGCTTAC--AATCTTCAACCTATTCCACTGCTG-TCTAGGG
1 AGATAA-GATT-CGTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * * * * * *
1043645 AGATAGGACTAGT-GGCTTAAATCTGCTTCC-CTACTACCTGAGGA
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACT-GCTTAGGG
* * * *
1043689 AGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTTGGG
1 AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
1043733 AGATAAGAT
1 AGATAAGAT
1043742 CTGTAATTTT
Statistics
Matches: 437, Mismatches: 141, Indels: 92
0.65 0.21 0.14
Matches are distributed among these distances:
42 3 0.01
43 101 0.23
44 251 0.57
45 76 0.17
46 5 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:1043209 original size:132 final size:131
Alignment explanation
Indices: 1043028--1043302 Score: 408
Period size: 132 Copynumber: 2.1 Consensus size: 131
1043018 TGCTGTCCAA
* * * **
1043028 GGAGATAGGACCAGTGGCTTAAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTT
1 GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCACCGTCTT
* * * * *
1043093 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTAT-TTTCAACCTACTCCACTATTGCT
66 CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTT-AACCTACTCCAC-ACTGCT
1043157 TAG
129 TAG
*
1043160 GGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAGATAAGATTCACCGTCTT
1 GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCACCGTCTT
*
1043225 CAATCTGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACACTGCTTA
66 CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACACTGCTTA
1043290 G
131 G
*
1043291 GGAGATAAGACT
1 GGAGATAGGACT
1043303 TACAATCTTC
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
131 19 0.15
132 107 0.83
133 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (131 bp):
GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCACCGTCTT
CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACACTGCTTA
G
Found at i:1043341 original size:175 final size:176
Alignment explanation
Indices: 1043100--1043450 Score: 458
Period size: 175 Copynumber: 2.0 Consensus size: 176
1043090 CTTCGATCTG
* * * * *
1043100 CTCCACTACTGCTTAGGGAGATAAGATCTGTTATTTTCAACCTACTCCACTATTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTCAAGGAGA
* *
1043165 TAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAGATAAGATTCACCGTCTTCAATC
66 TAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCACCGTCTTCAATC
* * *
1043230 TGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTA
131 TGCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
* *
1043276 CTCCAC-ACTGCTTAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCTG-TCCAAGG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGT--AATCTTCAACCTACTCCACTACTGCT-CAAGG
* * * * * *
1043337 AGATAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCG
63 AGATAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCACCGTCTTCA
* * *
1043402 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTA
128 ATCTGCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
1043451 TTCTACTGCT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
173 1 0.01
174 3 0.02
175 141 0.93
176 6 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (176 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTCAAGGAGA
TAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCACCGTCTTCAATC
TGCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
Found at i:1043442 original size:132 final size:132
Alignment explanation
Indices: 1043276--1043587 Score: 468
Period size: 132 Copynumber: 2.4 Consensus size: 132
1043266 ATTTAACCTA
1043276 CTCCAC-ACTGCTTAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCTGTCCAAGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGT--AATCTTCAACCTATTCCACTGCTGTCCAAGGA
* * * *
1043338 GATAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCGA
64 AATAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCGTCTTCGA
1043403 TCTG
129 TCTG
* * * *
1043407 CTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCTACTGCTGTCTAGGGAAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAAGGAAA
* * *
1043472 TAGGACTAGTGACTTAAATTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATC
66 TAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCGTCTTCGATC
1043537 TG
131 TG
* *
1043539 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCA
1043588 TCACTGCTTA
Statistics
Matches: 163, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
131 6 0.04
132 154 0.94
133 2 0.01
134 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAAGGAAA
TAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCGTCTTCGATC
TG
Found at i:1043477 original size:307 final size:306
Alignment explanation
Indices: 1042914--1044399 Score: 1551
Period size: 307 Copynumber: 4.8 Consensus size: 306
1042904 AGATTCGTCA
* * *
1042914 TCTTCGATCTGCTCCACTATTGCTTAAGGAGATAAGATTGTAATTTTCAACCTACTCCACTACTG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAATTTTCAACCTACTCCACTACTG
* * *
1042979 CTTAGGGAGATAAGGCTTACAATCTTCAACCTATTACACTGCTGTCCAAGGAGATAGGACCAGTG
66 CTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAGTG
* * *
1043044 GCTTAAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTAC
131 GCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
* * ** * *
1043109 TGCTTAGGGAGATAAGATCTGTTATTTTCAACCTACTCCACTATTG-CTTAGGGAGATAGGACTA
196 TGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTC-CAGGGAGATAAGACTA
1043173 GTGACTTAAATCTGCTTCCCTACTACCTGGGAAAGATAAGATTCACCG
260 GTGACTTAAATCTGCTTCCCTACTACCTGGG-AAGATAAGATTCACCG
** *
1043221 TCTTCAATCTGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTT-AACCTACTCCAC-AC
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAAT-TTTCAACCTACTCCACTAC
*
1043284 TGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAA
64 TGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAG
* ** *
1043349 TGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
129 TGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
* * * * * *
1043414 ACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCTACTGCTGTCTAGGGAAATAGGACT
194 ACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* *
1043479 AGTGACTTAAATTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCG
259 AGTGACTTAAATCTGCTTCCCTACTACCT-GGGAAGATAAGATTCACCG
*
1043528 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCA-TCAC
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TGTAATTTTCAACCTACTCCACT-AC
* * *
1043592 TGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAG
64 TGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAG
* *
1043657 TGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACT
129 TGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACT
* *
1043722 ACTGCTTTGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
194 ACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* ** * * * * * * * **
1043787 -GTTATCTTCTACCT-ATTCCACTGCTGCCCAGGG-AGATAGGACT-AGTG
259 AGTGA-CTTAAATCTGCTTCC-CTACT-ACCTGGGAAGATAAGATTCACCG
* * * * * * ** * ** * *
1043834 GCTTTAATCTACTTCC-CTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCACTA
1 TCTTCAATCTGC-TCCACTACTGCTTAGGG-AGATAAGATT-GTAATTTTCAACCTACTCCACTA
* * * * *
1043898 CTGCTTAGGGAGATAAGA-TCTGCAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGACT
63 CTGCTTAGGGAGATAAGACT-TACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACT
* * * * * *
1043962 AGTGGCTTAAATCTGCTTCCGTATTACCT-AGGAAGATAAGATTCACCATTTTTGATCTGCTCCA
127 AGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCA
* * *
1044026 CTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCCAGGGAGATAAGA
192 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAGATAAGA
* * * * * * * * * **
1044091 CTGGT-ATCTTCAACCT-ATTCCACTGCTGTCCAGGG-AGATAGGACT-AGTGG
257 CTAGTGA-CTTAAATCTGCTTCC-CTACT-ACCTGGGAAGATAAGATTCA-CCG
* * * * * * * *
1044141 T-TTAAATCTGCTTCC-CTACTACTTGGGGAAGATAAGATT-CACTATCTTCGATCTGCTCCACT
1 TCTTCAATCTGC-TCCACTACTGCTTAGGG-AGATAAGATTGTA--ATTTTCAACCTACTCCACT
* * ** *
1044203 ACTACTTAGGGAGATAAGATCTGT--AATTTTTGACCTATTCCACT-ATCGTCC-AGGCAGATAG
62 ACTGCTTAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCT-GTCCAAGG-AGATAG
* * * * *
1044264 GACTAGTGGCTTAAATCAGCTTCCCTACTACCTTG-GGAAGATAAGATTTGTCGTATTTGATCTG
123 GACTAGTGGCTTAAATCTGCTTCCCTACTACC-TGAGGAAGATAAGATTCGCCGTCTTCGATCTG
* * * * *
1044328 CTCCACTATTACTTAGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGA
187 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAGA
*
1044393 TAGGACT
252 TAAGACT
1044400 GGTATCTTCG
Statistics
Matches: 1029, Mismatches: 125, Indels: 50
0.85 0.10 0.04
Matches are distributed among these distances:
304 1 0.00
305 3 0.00
306 282 0.27
307 522 0.51
308 216 0.21
309 5 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (306 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTGTAATTTTCAACCTACTCCACTACTG
CTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAGTG
GCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAGGGAGATAAGACTAG
TGACTTAAATCTGCTTCCCTACTACCTGGGAAGATAAGATTCACCG
Found at i:1043532 original size:88 final size:87
Alignment explanation
Indices: 1043422--1043885 Score: 244
Period size: 88 Copynumber: 5.3 Consensus size: 87
1043412 CTACTGCTTA
*** * *
1043422 GGAAGATAAGATCTGTAATCTTCAACCTATTCTACTGCTGTCTAGGGAAATAGGACTAGTGACTT
1 GGAAGATAAGAT-TGCCGTCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTT
*
1043487 AAATTTGCTTCCCTACTACCTGG
65 AAATCTGCTTCCCTACTACCTGG
* * ** * * *
1043510 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTG-CTTAGGGAGATAAGATCT-GTAAT
1 GGAAGATAAGATT-GCCGTCTTCAACCTATTCCACTGCTGTC-TAGGGAGATAGGA-CTAGTGA-
* * * * * * * *
1043573 TTTCAACCTAC-TCCATCACTGCTTAG
62 CTTAAATCTGCTTCCCT-ACTACCTGG
* * ** *
1043599 GG-AGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTT
1 GGAAGATAA-GATTGCCGTCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTT
*
1043663 AAATCTGCTTCCCTACTACCTGA
65 AAATCTGCTTCCCTACTACCTGG
* * * ** * * * *
1043686 GGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTG-CTTTGGGAGATAAGATCT-GTAAT
1 GGAAGATAAGA-TTGCCGTCTTCAACCTATTCCACTGCTGTC-TAGGGAGATAGGA-CTAGTGA-
* ** * * * * *
1043749 TTTCGACCT-ATTCCACTGCTGTCC-AG
62 CTTAAATCTGCTTCC-CTACT-ACCTGG
* *** * * * * *
1043775 GG-AGATAAGACTGTTATCTTCTACCTATTCCACTGCTGCCCAGGGAGATAGGACTAGTGGCTTT
1 GGAAGATAAGATTGCCGTCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTTA
*
1043839 AATCTACTTCCCTACTACCTGG
66 AATCTGCTTCCCTACTACCTGG
*
1043861 GGAAGATAAGATTCGCCATCTTCAA
1 GGAAGATAAGATT-GCCGTCTTCAA
1043886 TATGCTTCAC
Statistics
Matches: 264, Mismatches: 90, Indels: 44
0.66 0.23 0.11
Matches are distributed among these distances:
85 2 0.01
86 14 0.05
87 65 0.25
88 148 0.56
89 33 0.12
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (87 bp):
GGAAGATAAGATTGCCGTCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTTA
AATCTGCTTCCCTACTACCTGG
Found at i:1043675 original size:176 final size:174
Alignment explanation
Indices: 1043425--1043961 Score: 756
Period size: 175 Copynumber: 3.1 Consensus size: 174
1043415 CTGCTTAGGA
* * *
1043425 AGATAAGATCTGTAATCTTCAACCTATTCTACTGCTGTCTAGGGAAATAGGACTAGTGACTTAAA
1 AGATAAGA-CTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAA
*
1043490 TTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
65 TCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
*
1043555 GGAGATAAGATCTGTAATTTTCAACCTACTCCATCACTGCT-T-AGGG
130 GGAGATAAGATCTGTAATTTTCGACCTA-TCC--CACTGCTGTCAGGG
*
1043601 AGATAAGGCT-TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAA
1 AGATAAGACTGT--AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAA
* * * *
1043665 ATCTGCTTCCCTACTACCTGAGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTT
64 ATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
1043730 GGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGG
129 GGGAGATAAGATCTGTAATTTTCGACCTATCCCACTGCTGT-CAGGG
* * * * *
1043777 AGATAAGACTGTTATCTTCTACCTATTCCACTGCTGCCCAGGGAGATAGGACTAGTGGCTTTAAT
1 AGATAAGACTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAAT
* * * * *
1043842 CTACTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCACTACTGCTTAGG
66 CTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
* **
1043907 GAGATAAGATCTGCAATTTTCGACCTATTTCACTGCTGTCCAGGG
131 GAGATAAGATCTGTAATTTTCGACCTATCCCACTGCTGT-CAGGG
*
1043952 AGATAGGACT
1 AGATAAGACT
1043962 AGTGGCTTAA
Statistics
Matches: 326, Mismatches: 29, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
173 7 0.02
174 2 0.01
175 160 0.49
176 156 0.48
177 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (174 bp):
AGATAAGACTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAAT
CTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTGTAATTTTCGACCTATCCCACTGCTGTCAGGG
Found at i:1043809 original size:43 final size:43
Alignment explanation
Indices: 1043730--1043829 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
1043720 CTACTGCTTT
* *
1043730 GGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCA
1 GGGAGATAAGA-CTGTAATCTTCGACCTATTCCACTGCTGCCCA
* *
1043774 GGGAGATAAGACTGTTATCTTCTACCTATTCCACTGCTGCCCA
1 GGGAGATAAGACTGTAATCTTCGACCTATTCCACTGCTGCCCA
*
1043817 GGGAGATAGGACT
1 GGGAGATAAGACT
1043830 AGTGGCTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 40 0.78
44 11 0.22
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
GGGAGATAAGACTGTAATCTTCGACCTATTCCACTGCTGCCCA
Found at i:1043865 original size:483 final size:476
Alignment explanation
Indices: 1043135--1044246 Score: 1480
Period size: 483 Copynumber: 2.3 Consensus size: 476
1043125 ATCTGTTATT
* ** *
1043135 TTCAACCTACTCCACTATTG-CTTAGGGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTAC
1 TTCAACCTATTCCACTGCTGTC-TAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTAC
* * * ** *
1043199 CTGGGAAAGATAAGATTCACCGTCTTCAATCTGCTTAACTACTGCATAGGGAGATAAGATCTGTA
65 CTGGG-AAGATAAGATTTAACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
* *
1043264 ATATTTAACCTACTCCACACTGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCT
129 AT-TTTGACCTA-TTC-CACTGCTTAGGGAGATAAGACTTA-AATCTTCAACCTATTCCACTGCT
* ** *
1043329 GTCCAAGGAGATAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGC
190 GCCCAAGGAGATAGGACTAATGGCTTAAATCTACTTCCCTACTACATGGGGAAGATAAGATTCGC
* * * *
1043394 CGTCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTA-TTCTACT
255 CATCTTCAATATGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACCTATTTC-ACT
* * *
1043458 GCTGTCTAGGGAAATAGGACTAGTGACTTAAATTTGCTTCCCTACTACCTGGGGAAGATAAGATT
319 GCTGTCCAGGGAAATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCT-AGGAAGATAAGATT
* * *
1043523 CGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCA
383 CACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCA
* *
1043588 TCA-CTG-CTTAGGGAGATAAGGCTTACAATC
448 -CAGCTGTC-CAGGGAGATAAGAC-TACAATC
1043618 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACC
** *
1043683 TGAGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTTGGGAGATAAGATCTGTAA
66 TG-GGAAGATAAGATTTAACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
* *
1043748 TTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACTGT-TATCTTCTACCTATTCCACTGCT
130 TTTT-GACCTATTCCACTGCT-T--AGGGAGATAAGACT-TAAATCTTCAACCTATTCCACTGCT
* * * *
1043812 GCCCAGGGAGATAGGACTAGTGGCTTTAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGC
190 GCCCAAGGAGATAGGACTAATGGCTTAAATCTACTTCCCTACTACATGGGGAAGATAAGATTCGC
* * * *
1043877 CATCTTCAATATGCTTCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTTCACTG
255 CATCTTCAATATGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACCTATTTCACTG
* * * *
1043942 CTGTCCAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCGTATTACCTAGGAAGATAAGATTCA
320 CTGTCCAGGGAAATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTAGGAAGATAAGATTCA
* * * *
1044007 CCATTTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACA
385 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACA
***
1044072 GCTGTCCAGGGAGATAAGACTGGTATC
450 GCTGTCCAGGGAGATAAGACTACAATC
* * *
1044099 TTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGTTTAAATCTGCTTCCCTACTACT
1 TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACC
* * *
1044164 TGGGGAAGATAAGA-TTCACTATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTA
66 T-GGGAAGATAAGATTTAAC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1044228 ATTTTTGACCTATTCCACT
129 A-TTTTGACCTATTCCACT
1044247 ATCGTCCAGG
Statistics
Matches: 557, Mismatches: 59, Indels: 28
0.86 0.09 0.04
Matches are distributed among these distances:
480 3 0.01
481 142 0.25
482 97 0.17
483 294 0.53
484 20 0.04
485 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (476 bp):
TTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACC
TGGGAAGATAAGATTTAACGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
TTTGACCTATTCCACTGCTTAGGGAGATAAGACTTAAATCTTCAACCTATTCCACTGCTGCCCAA
GGAGATAGGACTAATGGCTTAAATCTACTTCCCTACTACATGGGGAAGATAAGATTCGCCATCTT
CAATATGCTCCACTACTGCTTAGGAAGATAAGATCTGCAATCTTCAACCTATTTCACTGCTGTCC
AGGGAAATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTAGGAAGATAAGATTCACCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACAGCTGTC
CAGGGAGATAAGACTACAATC
Found at i:1044045 original size:175 final size:176
Alignment explanation
Indices: 1043904--1044267 Score: 475
Period size: 175 Copynumber: 2.1 Consensus size: 176
1043894 ACTACTGCTT
* * *
1043904 AGGGAGATAAGATCTGCAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
1 AGGGAGATAAGA-CTGCAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
* * * * *
1043969 TAAATCTGCTTCCGTATTACCT-AGGAAGATAAGATTCACCATTTTTGATCTGCTCCACTACTGC
65 TAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTAC
* *
1044033 TTAGGGAGATAAGA-TCTGCAATTTTCGACCTATTCCACAGCTGTCC
130 TTAGGGAGATAAGATTCTGCAATCTTCGACATATTCCACAGCTGTCC
** *
1044079 AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGTTT
1 AGGGAGATAAGACTGCAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCTT
* * *
1044144 AAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTACT
66 AAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACT
* * * * *
1044209 TAGGGAGATAAGA-TCTGTAATTTTTGACCTATTCCACTATC-GTCC
131 TAGGGAGATAAGATTCTGCAATCTTCGACATATTCCAC-AGCTGTCC
* *
1044254 AGGCAGATAGGACT
1 AGGGAGATAAGACT
1044268 AGTGGCTTAA
Statistics
Matches: 168, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
174 65 0.39
175 101 0.60
176 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (176 bp):
AGGGAGATAAGACTGCAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCTT
AAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACT
TAGGGAGATAAGATTCTGCAATCTTCGACATATTCCACAGCTGTCC
Found at i:1044063 original size:131 final size:132
Alignment explanation
Indices: 1043773--1044092 Score: 455
Period size: 131 Copynumber: 2.4 Consensus size: 132
1043763 ACTGCTGTCC
** * * *
1043773 AGGGAGATAAGA-CTGTTATCTTCTACCTATTCCACTGCTGCCCAGGGAGATAGGACTAGTGGCT
1 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
* * * *
1043837 TTAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCACTACTGC
66 TAAATCTACTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTGC
1043902 TT
131 TT
*
1043904 AGGGAGATAAGATCTGCAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
1 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
* * * * ** *
1043969 TAAATCTGCTTCCGTATTACCT-AGGAAGATAAGATTCACCATTTTTGATCTGCTCCACTACTGC
66 TAAATCTACTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTGC
1044033 TT
131 TT
* *
1044035 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCCAGGGAGATAAGACT
1 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
1044093 GGTATCTTCA
Statistics
Matches: 168, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
131 104 0.62
132 64 0.38
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
TAAATCTACTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTGC
TT
Found at i:1044070 original size:44 final size:44
Alignment explanation
Indices: 1044022--1044247 Score: 103
Period size: 44 Copynumber: 5.2 Consensus size: 44
1044012 TTTGATCTGC
1044022 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
* ** * *
1044066 TCCAC-AGCTG-TCCAGGGAGATAAGA-CTGGTATCTTCAACCTAT
1 TCCACTA-CTGCT-TAGGGAGATAAGATCTGCAATTTTCGACCTAT
* * * * ** * *
1044109 TCCACTGCTG-TCCAGGGAGATAGGA-CT--AGTGGTTTAAATCTGCT
1 TCCACTACTGCT-TAGGGAGATAAGATCTGCAAT--TTTCGACCT-AT
* * * * **
1044153 TCC-CTACTACTTGGGGAAGATAAGAT-T-CACTATCTTCGATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCTGCA--ATTTTCGACCTAT
* * *
1044197 TCCACTACTACTTAGGGAGATAAGATCTGTAATTTTTGACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
1044241 TCCACTA
1 TCCACTA
1044248 TCGTCCAGGC
Statistics
Matches: 136, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
41 1 0.01
43 53 0.39
44 60 0.44
45 20 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
Found at i:1044119 original size:43 final size:43
Alignment explanation
Indices: 1044035--1044135 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
1044025 ACTACTGCTT
* *
1044035 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCC
1 AGGGAGATAAGA-CTGCAATCTTCAACCTATTCCACAGCTGTCC
** *
1044079 AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCC
1 AGGGAGATAAGACTGCAATCTTCAACCTATTCCACAGCTGTCC
*
1044122 AGGGAGATAGGACT
1 AGGGAGATAAGACT
1044136 AGTGGTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 39 0.76
44 12 0.24
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (43 bp):
AGGGAGATAAGACTGCAATCTTCAACCTATTCCACAGCTGTCC
Found at i:1044418 original size:132 final size:132
Alignment explanation
Indices: 1044079--1044418 Score: 438
Period size: 132 Copynumber: 2.6 Consensus size: 132
1044069 ACAGCTGTCC
** * * *
1044079 AGGGAGATAAGA-CTGGTATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGT-
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTAGT-GTC
1044142 TTAAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTA
65 TTAAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTA
1044207 CTT
130 CTT
* * * * * *
1044210 AGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGGCT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTAGTGTCT
* ** *
1044275 TAAATCAGCTTCCCTACTACCTT-GGGAAGATAAGATTTGTCGTAT-TT-GATCTGCTCCACTAT
66 TAAATCTGCTTCCCTACTA-CTTGGGGAAGATAAGA-TTCAC-TATCTTCGATCTGCTCCACTAC
1044337 TACTT
128 TACTT
* *
1044342 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTGGTATCT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTAGTGTCT
**
1044407 TCGATCTGCTTC
66 TAAATCTGCTTC
1044419 ACCGTCAGTA
Statistics
Matches: 179, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
131 13 0.07
132 155 0.87
133 8 0.04
134 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (132 bp):
AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTAGTGTCT
TAAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTAC
TT
Found at i:1044461 original size:132 final size:131
Alignment explanation
Indices: 1044079--1044461 Score: 317
Period size: 132 Copynumber: 2.9 Consensus size: 131
1044069 ACAGCTGTCC
** * * * * * *
1044079 AGGGAGATAAGA-CTGGTATCTTCAACCTATTCCACT-GCTGTCCAGGGAGATAGGACTAGTGGT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTATC-GTCCAGGCAGATAGGACTAGTAGC
* * * * ** * * *
1044142 TTAAATCTGCTTCCCTACTACTTGGGGAAGATAAGAT-TCACTATCTTCGATCTGCTCCACTACT
65 TTAAATCAGCTTCCCTACTACCT-AGGAAGACAAGATCTGTC-ATATTCAACCTGCTCCACTACT
1044206 ACTT
128 ACTT
* * *
1044210 AGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGGCT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTAGCT
* * * * ** * *
1044275 TAAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTGTCGTATTTGATCTGCTCCACTATTAC
66 TAAATCAGCTTCCCTACTACC-TAGGAAGACAAGATCTGTCATATTCAACCTGCTCCACTACTAC
1044340 TT
130 TT
* * * * *
1044342 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGTTGTCCAGGGAGATAGGACTGGTATCT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTAGCT
** * * * *
1044407 TCGATCTGCTTCACCGTCAGTA-C-AGGAAGGCAAGATCTGTTATATTCAACCTGCT
66 TAAATCAGCTTC-CC-T-ACTACCTAGGAAGACAAGATCTGTCATATTCAACCTGCT
1044462 TCGCTGCAAC
Statistics
Matches: 208, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
131 12 0.06
132 185 0.89
133 6 0.03
134 2 0.01
135 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (131 bp):
AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTAGCT
TAAATCAGCTTCCCTACTACCTAGGAAGACAAGATCTGTCATATTCAACCTGCTCCACTACTACT
T
Found at i:1045883 original size:46 final size:44
Alignment explanation
Indices: 1045833--1045970 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 44
1045823 TTTTTTAAAA
* *
1045833 TTTTTTTTGGATTCAAAGTGCCTTTTGCAGGTTTTCACTTTGGTCT
1 TTTTTTTTGGAATCAAAGTGCCATTTGC-GGTTTTCAC-TTGGTCT
* *
1045879 TTTTTTTAGGAATCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTCT
1 TTTTTTTTGGAATCAAAGTGCCATTTGC-GGTTTTCA-CTTGGTCT
*
1045925 TTTTTTTTAGGAATCAAAGCGCCATTTGCGAGTTTTCAACTTGGTC
1 TTTTTTTT-GGAATCAAAGTGCCATTTGCG-GTTTTC-ACTTGGTC
1045971 CCTTTTCCTT
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
46 48 0.59
47 32 0.40
48 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (44 bp):
TTTTTTTTGGAATCAAAGTGCCATTTGCGGTTTTCACTTGGTCT
Found at i:1045929 original size:47 final size:46
Alignment explanation
Indices: 1045833--1045970 Score: 188
Period size: 47 Copynumber: 3.0 Consensus size: 46
1045823 TTTTTTAAAA
* * * *
1045833 TTTTTTTT-GGATTCAAAGTGCCTTTTGCAGGTTTTCACTTTGGTC
1 TTTTTTTTAGGAATCAAAGTGCCATTTGCGGGTTTTCACCTTGGTC
*
1045878 TTTTTTTTAGGAATCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTTTTTAGGAATCAAAGTGCCATTTGCGGGTTTTCACCTTGGTC
* * *
1045924 TTTTTTTTTAGGAATCAAAGCGCCATTTGCGAGTTTTCAACTTGGTC
1 -TTTTTTTTAGGAATCAAAGTGCCATTTGCGGGTTTTCACCTTGGTC
1045971 CCTTTTCCTT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 8 0.10
46 33 0.40
47 42 0.51
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (46 bp):
TTTTTTTTAGGAATCAAAGTGCCATTTGCGGGTTTTCACCTTGGTC
Found at i:1046824 original size:22 final size:22
Alignment explanation
Indices: 1046796--1046837 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1046786 TTAACCTCTC
*
1046796 CTTTTTTCTTTTC-TTTTCATCT
1 CTTTTTT-TTATCATTTTCATCT
1046818 CTTTTTTTTATCATTTTCAT
1 CTTTTTTTTATCATTTTCAT
1046838 TTTTTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTTTTTTATCATTTTCATCT
Found at i:1046855 original size:14 final size:15
Alignment explanation
Indices: 1046822--1046857 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1046812 TCATCTCTTT
1046822 TTTTTATCATTTTCA
1 TTTTTATCATTTTCA
*
1046837 TTTTT-TCATTTTGA
1 TTTTTATCATTTTCA
1046851 TTTTTAT
1 TTTTTAT
1046858 TTTTATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTATCATTTTCA
Found at i:1046880 original size:26 final size:26
Alignment explanation
Indices: 1046851--1046914 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
1046841 TTCATTTTGA
*
1046851 TTTTTATTTTTATCTAGATTTTTCCTT
1 TTTTTATTTTT-TCTAGATTTTTCATT
* *
1046878 TTTTTATTTTTTCTTGATTTTTGA-T
1 TTTTTATTTTTTCTAGATTTTTCATT
*
1046903 TTTTGATTTTTT
1 TTTTTATTTTTT
1046915 TTAATTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 12 0.36
26 10 0.30
27 11 0.33
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.75
Consensus pattern (26 bp):
TTTTTATTTTTTCTAGATTTTTCATT
Found at i:1048626 original size:30 final size:30
Alignment explanation
Indices: 1048592--1048688 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
1048582 AGCTCACTCC
1048592 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
1048622 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
1048652 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
1048682 TAGCTCA
1 TAGCTCA
1048689 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:1054702 original size:45 final size:46
Alignment explanation
Indices: 1054589--1054784 Score: 177
Period size: 46 Copynumber: 4.3 Consensus size: 46
1054579 CTTACTTCCG
* * * *
1054589 TCATGATGCCATAGCATCTTTCAACTATGGTCTTACTTATTTTAAT
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
* *
1054635 TCCTGTTGCCATAACGTCTTTCAACTATAGTCTTACTTGTTTTAA-
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
* * * * *
1054680 TCATGTTGCCATAATGTTTTTCAGCTATGGTCTTACTCG-TTT-AC
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
* * ** * *
1054724 TCATATTGTCATGTCGTCTTTCAGCTATGGTCTTA-TTCGTTTGAA-
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTT-GTTTTAAT
*
1054769 TCATGTTTGCAATAAC
1 TCATG-TTGCCATAAC
1054785 ATATATATAT
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
43 2 0.02
44 33 0.28
45 39 0.32
46 46 0.38
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (46 bp):
TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
Found at i:1054749 original size:44 final size:45
Alignment explanation
Indices: 1054605--1054772 Score: 153
Period size: 44 Copynumber: 3.7 Consensus size: 45
1054595 TGCCATAGCA
* ** * *
1054605 TCTTTCAACTATGGTCTTACTTATTTTAATTCCTGTTGCCATAA-CG
1 TCTTTCAGCTATGGTCTTAC-TCGTTTAA-TCATATTGCCATAATCG
* * * *
1054651 TCTTTCAACTATAGTCTTACTTGTTTTAATCATGTTGCCATAAT-G
1 TCTTTCAGCTATGGTCTTACTCG-TTTAATCATATTGCCATAATCG
* * * *
1054696 TTTTTCAGCTATGGTCTTACTCGTTTACTCATATTGTCAT-GTCG
1 TCTTTCAGCTATGGTCTTACTCGTTTAATCATATTGCCATAATCG
*
1054740 TCTTTCAGCTATGGTCTTATTCGTTTGAATCAT
1 TCTTTCAGCTATGGTCTTACTCGTTT-AATCAT
1054773 GTTTGCAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
43 1 0.01
44 39 0.38
45 39 0.38
46 24 0.23
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCGTTTAATCATATTGCCATAATCG
Found at i:1061682 original size:16 final size:16
Alignment explanation
Indices: 1061661--1061699 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1061651 AGGGCTAGAA
1061661 TATGCCCAAGAAAGAG
1 TATGCCCAAGAAAGAG
* *
1061677 TATGCCTAAGGAAGAG
1 TATGCCCAAGAAAGAG
*
1061693 TACGCCC
1 TATGCCC
1061700 GAGAGTTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (16 bp):
TATGCCCAAGAAAGAG
Found at i:1067985 original size:18 final size:18
Alignment explanation
Indices: 1067961--1068010 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
1067951 AGATTCGATG
* *
1067961 CAAAAAAAAAAGAAGGAA
1 CAAAAAAAAAAAAAAGAA
1067979 -AAAAAAATAAAAAAAGAA
1 CAAAAAAA-AAAAAAAGAA
1067997 CAAAAATAAAAAAA
1 CAAAAA-AAAAAAA
1068011 CAAAAAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 8 0.30
19 10 0.37
20 2 0.07
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (18 bp):
CAAAAAAAAAAAAAAGAA
Found at i:1067992 original size:8 final size:8
Alignment explanation
Indices: 1067979--1068018 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
1067969 AAAGAAGGAA
1067979 AAAAAAAT
1 AAAAAAAT
*
1067987 AAAAAAAG
1 AAAAAAAT
1067995 AACAAAAAT
1 AA-AAAAAT
*
1068004 AAAAAAAC
1 AAAAAAAT
1068012 AAAAAAA
1 AAAAAAA
1068019 CCTCTACCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.88, C:0.05, G:0.03, T:0.05
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1068002 original size:22 final size:23
Alignment explanation
Indices: 1067962--1068017 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
1067952 GATTCGATGC
**
1067962 AAAAAAAAAAGAAGGAAAA-AAA
1 AAAAAAAAAAGAACAAAAATAAA
*
1067984 AATAAAAAAAGAACAAAAATAAA
1 AAAAAAAAAAGAACAAAAATAAA
1068007 AAAACAAAAAA
1 AAAA-AAAAAA
1068018 ACCTCTACCG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 16 0.57
23 6 0.21
24 6 0.21
ACGTcount: A:0.86, C:0.04, G:0.07, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAAGAACAAAAATAAA
Found at i:1068018 original size:17 final size:17
Alignment explanation
Indices: 1067978--1068018 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1067968 AAAAGAAGGA
*
1067978 AAAAAAAATAAAAAAAG
1 AAAAAAAATAAAAAAAC
*
1067995 AACAAAAATAAAAAAAC
1 AAAAAAAATAAAAAAAC
1068012 AAAAAAA
1 AAAAAAA
1068019 CCTCTACCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAC
Found at i:1068537 original size:14 final size:14
Alignment explanation
Indices: 1068518--1068562 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
1068508 TGAAAAAATG
1068518 TGAAAAAATGAAAA
1 TGAAAAAATGAAAA
1068532 TG-AAAAATGAAAAA
1 TGAAAAAATG-AAAA
*
1068546 TGGAAAAAATAAAAA
1 T-GAAAAAATGAAAA
1068561 TG
1 TG
1068563 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 6 0.22
16 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
TGAAAAAATGAAAA
Found at i:1068551 original size:15 final size:16
Alignment explanation
Indices: 1068511--1068564 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
1068501 GATGATGTGA
1068511 AAAAATGTGAAAAAATG
1 AAAAATG-GAAAAAATG
1068528 -AAAAT-G-AAAAATG
1 AAAAATGGAAAAAATG
1068541 AAAAATGGAAAAAAT-
1 AAAAATGGAAAAAATG
1068556 AAAAATGGA
1 AAAAATGGA
1068565 GAGGCTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 10 0.29
16 11 0.32
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
AAAAATGGAAAAAATG
Found at i:1068559 original size:6 final size:7
Alignment explanation
Indices: 1068521--1068562 Score: 52
Period size: 6 Copynumber: 6.0 Consensus size: 7
1068511 AAAAATGTGA
1068521 AAAAATG
1 AAAAATG
1068528 -AAAATG
1 AAAAATG
1068534 AAAAATG
1 AAAAATG
1068541 AAAAATGG
1 AAAAAT-G
1068549 AAAAAAT-
1 -AAAAATG
1068556 AAAAATG
1 AAAAATG
1068563 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 1 0.03
9 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:1069981 original size:88 final size:88
Alignment explanation
Indices: 1069827--1070154 Score: 478
Period size: 88 Copynumber: 3.7 Consensus size: 88
1069817 CAGAGCAGAC
* * * * * *
1069827 TGAAAATGGCAGATCTTGCCATCCTGTACTGACAGCGAAGCAGATCGAAGATATCAACCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTATCT
1069892 CCTTGGGCAGTAGTGGAGTAGGT
66 CCTTGGGCAGTAGTGGAGTAGGT
* * *
1069915 TGAAAAT-GACAGATCTTGCCTTCTTGTATTAACAACGAAGCAGATCGAAGATACCAGCCTTATC
1 TGAAAATAG-CAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTATC
1069979 TCCTTGGGCAGTAGTGGAGTAGGT
65 TCCTTGGGCAGTAGTGGAGTAGGT
* * * *
1070003 GGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGCGAGGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTATCT
*
1070068 CCTTGGGCAGTAGTGGACTAGGT
66 CCTTGGGCAGTAGTGGAGTAGGT
* * * *
1070091 TGAAAATAGCAGATCTTGCCTTCCTGTACTGGCAACGAAGCAGATCAAAGACACCAGTCTTATC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTATC
1070155 ATCTTGACGT
Statistics
Matches: 214, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.00
88 212 0.99
89 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTATCT
CCTTGGGCAGTAGTGGAGTAGGT
Found at i:1070432 original size:22 final size:22
Alignment explanation
Indices: 1070397--1070439 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1070387 TGGAACAGAT
* * *
1070397 TGAAGCTACGACGGCGGATCTA
1 TGAAGCCACAACGGCAGATCTA
1070419 TGAAGCCACAACGGCAGATCT
1 TGAAGCCACAACGGCAGATCT
1070440 TATTTTCCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.16
Consensus pattern (22 bp):
TGAAGCCACAACGGCAGATCTA
Found at i:1070468 original size:72 final size:72
Alignment explanation
Indices: 1070347--1070489 Score: 171
Period size: 72 Copynumber: 2.0 Consensus size: 72
1070337 TGGAAAAGAT
** * * *
1070347 TGAAGCCACAACAGTGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGC
1 TGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGCGGAACAGATTGAAGCCACGACGGC
1070412 GGATCTA
66 GGATCTA
* * * * * *
1070419 TGAAGCCACAACGGCAGATCTTATTTTCCTGGC-GTCGCAGCGGAGCAGATTGAAGCCGCGATGG
1 TGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGT-GCAGCGGAACAGATTGAAGCCACGACGG
1070483 CGGATCT
65 CGGATCT
1070490 TATCTTCCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
71 2 0.03
72 57 0.97
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (72 bp):
TGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGCGGAACAGATTGAAGCCACGACGGC
GGATCTA
Found at i:1070608 original size:239 final size:239
Alignment explanation
Indices: 1070180--1070902 Score: 984
Period size: 239 Copynumber: 3.0 Consensus size: 239
1070170 TGGAATAGAT
* *
1070180 TGAAGCCACAACGACAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGATAGT
1 TGAAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGATAGC
* * *
1070245 GGGTCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAATGGATTGAAACTGTGGGCA
66 GGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTGGGCA
* *
1070310 GCGAATCTTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAAC-AGTGGATCTTACTTC
131 GCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGA-CGGATCTTACTTC
* *
1070374 CCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGGATCTA
195 CCTGGTGGTGTAGTGGAACAGATTGAAGCTACGACAGCGGATCTA
* *
1070419 TGAAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCGCGATGGC
1 TGAAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGATAGC
* * *
1070484 GGATCTTATCTTCCTGGTATTAAGGCTTGGATTAGATGAAGTGGAGTGGATTGAAGCTGTGGGCA
66 GGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTGGGCA
* * *
1070549 GCGGATCCTATCTCTTTAGCATCACAGTGGAAAAGATTGAAGCCACAACGACAGATCTTACTTCC
131 GCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGACGGATCTTACTTCC
*** * **
1070614 CTGGTGGCACAGTGGAACAGATTGAAGCTACGACATTGC-AATAAAAAAAA
196 CTGGTGGTGTAGTGGAACAGATTGAAGCTACGACA--GCGGAT-----CTA
* * * * ** *
1070664 TGAAAGCCGCAACGGCGGATCTTATTTTCCTAGAGTCGCAGCGGAATAGATTGAAGCCACGATTG
1 TG-AAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGATAG
** * * * * *
1070729 CAAATCTTATCTCCCTGGCGTTAAGGCTTTGATTAGCTAAAGTGGAGTGGATTGCAGCTGTGGGT
65 CGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTGGGC
* *
1070794 AGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTT
130 AGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGACGGATCTTACTTC
1070859 CCTGGTGGTGTAGTGGAACAGATTGAAG-TCACGACAGCGGATCT
195 CCTGGTGGTGTAGTGGAACAGATTGAAGCT-ACGACAGCGGATCT
1070903 GGTTTCCCTG
Statistics
Matches: 421, Mismatches: 52, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
239 208 0.49
240 3 0.01
241 2 0.00
244 2 0.00
245 6 0.01
246 200 0.48
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (239 bp):
TGAAGCCACAACGGCAGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGATAGC
GGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTGGGCA
GCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGACGGATCTTACTTCC
CTGGTGGTGTAGTGGAACAGATTGAAGCTACGACAGCGGATCTA
Found at i:1070882 original size:50 final size:50
Alignment explanation
Indices: 1070820--1070987 Score: 151
Period size: 50 Copynumber: 3.4 Consensus size: 50
1070810 TTAGCATTAC
*
1070820 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTGGTGT
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTAGTGT
* * * * ** ** *
1070870 AGTGGAACAGATTGAAGTCACGACAGCGGATC-TGGTTTCCCTGACATTG-
1 AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTT-CCTGGTAGTGT
* ** * *
1070919 CGATTTAAAAGATTGAAGCCACAACGACGGATCTTACTTCCCTGGTAGTGT
1 AG-TGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTAGTGT
* *
1070970 AATGGAACAGATTGAAGC
1 AGTGGAAAAGATTGAAGC
1070988 TATGACGGTG
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
49 5 0.06
50 77 0.91
51 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (50 bp):
AGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTAGTGT
Found at i:1070950 original size:100 final size:100
Alignment explanation
Indices: 1070825--1071059 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 100
1070815 ATTACAGTGG
* * *
1070825 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTGGTGTAGTGGAACAGATTGAAG-TC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGTAGTGTAATGGAACAGATTGAAGCT-
* * * *
1070889 ACGACAGCGGATCTGGTTTCCCTGACATTGCGATTT
65 ACGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
*
1070925 AAAAGATTGAAGCCACAACGACGGATCTTACTTCCCTGGTAGTGTAATGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGTAGTGTAATGGAACAGATTGAAGCTA
* * * *
1070990 TGACGGTGGATCTGGTTCCCCCGTCATTGCAATTA
66 CGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
1071025 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCC
1071060 TTAGCGGTGC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 120 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.26
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGTAGTGTAATGGAACAGATTGAAGCTA
CGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
Found at i:1071051 original size:50 final size:50
Alignment explanation
Indices: 1070878--1071052 Score: 136
Period size: 50 Copynumber: 3.5 Consensus size: 50
1070868 GTAGTGGAAC
* * * * * * * *
1070878 AGATTGAAGTCACGACAGCGGATCTGGTTTCCCTGACATTGCGATTTAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTCCCCCGTCATTGCAATTAAAA
* ** ** * * ** *
1070928 AGATTGAAGCCACAACGACGGATCTTACTTCCCTGGT-AGTGTAATGGAAC
1 AGATTGAAGCCACAACGGCGGATC-TGGTTCCCCCGTCATTGCAATTAAAA
* ** *
1070978 AGATTGAAGCTATGACGGTGGATCTGGTTCCCCCGTCATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTCCCCCGTCATTGCAATTAAAA
1071028 AGATTGAAGCCACAACGGCGGATCT
1 AGATTGAAGCCACAACGGCGGATCT
1071053 TACTTCCTTA
Statistics
Matches: 89, Mismatches: 34, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
49 8 0.09
50 75 0.84
51 6 0.07
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTGGTTCCCCCGTCATTGCAATTAAAA
Found at i:1072179 original size:3 final size:3
Alignment explanation
Indices: 1072173--1072231 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
1072163 GTTATCTTTG
*
1072173 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTAA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
1072218 TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TT
1072232 CTAATACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1072203 original size:24 final size:24
Alignment explanation
Indices: 1072173--1072227 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
1072163 GTTATCTTTG
1072173 TTATTATATT-ATATATTACTATTA
1 TTATTATATTAAT-TATTACTATTA
* *
1072197 TTATTATATTAATTATTATTATTT
1 TTATTATATTAATTATTACTATTA
1072221 TTATTAT
1 TTATTAT
1072228 TATTCTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTATATTAATTATTACTATTA
Found at i:1085911 original size:16 final size:16
Alignment explanation
Indices: 1085892--1085922 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1085882 TATATTATTA
*
1085892 TTGTGTTTATTTTCTT
1 TTGTGATTATTTTCTT
1085908 TTGTGATTATTTTCT
1 TTGTGATTATTTTCT
1085923 GCAAGGCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.13, T:0.71
Consensus pattern (16 bp):
TTGTGATTATTTTCTT
Found at i:1098651 original size:26 final size:26
Alignment explanation
Indices: 1098621--1098688 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
1098611 GTTCCGACCT
1098621 ACAGCTCGTGTGAGCAGACCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
1098647 ACAGCTCGTGTGAGCAGGCCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
1098673 ACATCTCGTGTGAGCA
1 ACAGCTCGTGTGAGCA
1098689 TACTCTTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTTC
Found at i:1098698 original size:26 final size:26
Alignment explanation
Indices: 1098625--1098707 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
1098615 CGACCTACAG
*
1098625 CTCGTGTGAGCAGACCCATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAA
* *
1098651 CTCGTGTGAGCAGGCCCATTTCACAT
1 CTCGTGTGAGCAGACCCATTTCACAA
* * * *
1098677 CTCGTGTGAGCATACTCTTTTCGCAA
1 CTCGTGTGAGCAGACCCATTTCACAA
1098703 CTCGT
1 CTCGT
1098708 ATGAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (26 bp):
CTCGTGTGAGCAGACCCATTTCACAA
Found at i:1111620 original size:25 final size:25
Alignment explanation
Indices: 1111592--1111662 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
1111582 AGGCTTCCCT
*
1111592 GATGACTCGCCCCAAAGGCTTTACA
1 GATGACTCGCCACAAAGGCTTTACA
*
1111617 GATGACTCACCACAAAGGCTTTACA
1 GATGACTCGCCACAAAGGCTTTACA
* *
1111642 GATGACTTGCCACAAGGGCTT
1 GATGACTCGCCACAAAGGCTT
1111663 CCCAAATGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (25 bp):
GATGACTCGCCACAAAGGCTTTACA
Found at i:1111725 original size:25 final size:25
Alignment explanation
Indices: 1111691--1111752 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
1111681 AGATGTCTTG
*
1111691 CCATAAAGGCTTTATATATGACTCA
1 CCATAAAGGCTTTATAGATGACTCA
*
1111716 CCATAAAGGCTTTATAGATGACTCT
1 CCATAAAGGCTTTATAGATGACTCA
*
1111741 CCACAAAGGCTT
1 CCATAAAGGCTT
1111753 CCTAGATGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
CCATAAAGGCTTTATAGATGACTCA
Found at i:1111769 original size:25 final size:25
Alignment explanation
Indices: 1111680--1111772 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
1111670 GATTCACCAC
* *
1111680 TAGATGTCTTGCCATAAAGGCTTTA
1 TAGATGACTTGCCACAAAGGCTTTA
* ** *
1111705 TATATGACTCACCATAAAGGCTTTA
1 TAGATGACTTGCCACAAAGGCTTTA
**
1111730 TAGATGACTCT-CCACAAAGGCTTCC
1 TAGATGACT-TGCCACAAAGGCTTTA
*
1111755 TAGATGTCTTGCCACAAA
1 TAGATGACTTGCCACAAA
1111773 ATCTTCCCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (25 bp):
TAGATGACTTGCCACAAAGGCTTTA
Found at i:1112847 original size:15 final size:17
Alignment explanation
Indices: 1112817--1112852 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1112807 TTTGAAAAAT
1112817 AAATTTTTCATTTTTA-
1 AAATTTTTCATTTTTAG
1112833 AAATTTTTCA-TTTTAG
1 AAATTTTTCATTTTTAG
1112849 AAAT
1 AAAT
1112853 AATATATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
AAATTTTTCATTTTTAG
Found at i:1112879 original size:33 final size:32
Alignment explanation
Indices: 1112836--1112953 Score: 109
Period size: 33 Copynumber: 3.6 Consensus size: 32
1112826 ATTTTTAAAA
*
1112836 TTTTTCATTTTAGAAATAATATATATCTAATAC
1 TTTTTAATTTTAGAAATAATATATAT-TAATAC
* *
1112869 TTTTTAATTTTA-AAA-AATGA-AGTTTTAAATAAT
1 TTTTTAATTTTAGAAATAAT-ATA-TATT-AAT-AC
*
1112902 TTTTTCATTTTTAGAAATAATATATA-TAATAC
1 TTTTT-AATTTTAGAAATAATATATATTAATAC
*
1112934 TTTTTAATTTTAAAAATAAT
1 TTTTTAATTTTAGAAATAAT
1112954 GTTTTAAAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
31 18 0.26
32 15 0.22
33 20 0.29
34 7 0.10
35 5 0.07
36 4 0.06
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTTTAATTTTAGAAATAATATATATTAATAC
Found at i:1112933 original size:65 final size:64
Alignment explanation
Indices: 1112836--1112961 Score: 202
Period size: 67 Copynumber: 1.9 Consensus size: 64
1112826 ATTTTTAAAA
1112836 TTTTTCATTTTAGAAATAATATATATCTAATACTTTTTAATTTTAAAAAATGAA-GTTTTAAATA
1 TTTTTCATTTTAGAAATAATATATA-CTAATACTTTTTAATTTT-AAAAAT-AATGTTTTAAATA
1112900 AT
63 AT
1112902 TTTTTCATTTTTAGAAATAATATATA-TAATACTTTTTAATTTTAAAAATAATGTTTTAAA
1 TTTTTCA-TTTTAGAAATAATATATACTAATACTTTTTAATTTTAAAAATAATGTTTTAAA
1112962 ACTTGTAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
63 2 0.03
64 14 0.24
65 17 0.29
66 7 0.12
67 18 0.31
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (64 bp):
TTTTTCATTTTAGAAATAATATATACTAATACTTTTTAATTTTAAAAATAATGTTTTAAATAAT
Found at i:1113583 original size:20 final size:19
Alignment explanation
Indices: 1113557--1113608 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
1113547 AACAATGAAT
1113557 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
*
1113577 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
*
1113594 CTGCTCATCAAGAGA
1 CTGTTCA-CAAGAGA
1113609 CGGGACTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.23
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:1114030 original size:15 final size:15
Alignment explanation
Indices: 1114008--1114045 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1113998 AAATACTAAT
*
1114008 AATAATAACAATAA-
1 AATAATAAAAATAAC
1114022 AAGTAATAAAAATAAC
1 AA-TAATAAAAATAAC
1114038 AATAATAA
1 AATAATAA
1114046 TACTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAATAAAAATAAC
Found at i:1122999 original size:20 final size:20
Alignment explanation
Indices: 1122976--1123017 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1122966 ATAAATTGGA
1122976 ATTAAAAATGATTAATTTGC
1 ATTAAAAATGATTAATTTGC
*
1122996 ATTAAAAATGGTTAATTTGC
1 ATTAAAAATGATTAATTTGC
1123016 AT
1 AT
1123018 GTTTTGTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
ATTAAAAATGATTAATTTGC
Found at i:1139007 original size:105 final size:108
Alignment explanation
Indices: 1138820--1139012 Score: 311
Period size: 105 Copynumber: 1.8 Consensus size: 108
1138810 GGCTGTCACA
* * *
1138820 CAATGTTTTACGTTTGGTAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGT
1 CAATGTTCTACGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGA-TTTTCTCGT
1138885 TCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGG
65 TCAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGG
*
1138929 CAATGTTCTGCGTTTGGAAATTCGAGG-AACGTGCCCTAATGTGCT-GGTTTCGA-TTTCTCGTT
1 CAATGTTCTACGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTT
*
1138991 TAACCAAATAGCCAAATATCCT
66 CAACCAAATAGCCAAATATCCT
1139013 CTTAAATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
105 30 0.38
107 8 0.10
108 17 0.22
109 24 0.30
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (108 bp):
CAATGTTCTACGTTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTCTCGTT
CAACCAAATAGCCAAATATCCTTCCAAAAATTTCAAAATAAGG
Found at i:1140623 original size:49 final size:48
Alignment explanation
Indices: 1140495--1140636 Score: 185
Period size: 49 Copynumber: 2.9 Consensus size: 48
1140485 GTACATGCAT
* * *
1140495 GCTCATACGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATCGGTAA
1 GCTCATACGAGCTA-GAATCAGTATGCTCTCACGAGCTG-CAATCAGTAA
* * *
1140545 GCTCATACAAGGTTAGAATTAGTATGCTCTCACGAGCTGCAATCAGTAA
1 GCTCATACGA-GCTAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
*
1140594 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTGCAAT
1 GCTCATACGAGCT-AGAATCAGTATGCTCTCACGAGCTGCAAT
1140637 TGGTAATCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 2 0.03
49 44 0.55
50 31 0.39
51 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (48 bp):
GCTCATACGAGCTAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
Found at i:1140632 original size:25 final size:25
Alignment explanation
Indices: 1140501--1140632 Score: 112
Period size: 25 Copynumber: 5.3 Consensus size: 25
1140491 GCATGCTCAT
* *
1140501 ACGAGCT-ATGAATCGGTATGCTCTC
1 ACGAGCTGA-GAATCAGTAAGCTCTC
*
1140526 ACGAGCTGTA-AATCGGTAAGCTCAT-
1 ACGAGCTG-AGAATCAGTAAGCTC-TC
* * * * *
1140551 ACAAGGTTAGAATTAGTATGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
*
1140576 ACGAGCTG-CAATCAGTAAGCTCAT-
1 ACGAGCTGAGAATCAGTAAGCTC-TC
1140600 ACGAGCTGAGAATCAGTAAGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
1140625 ACGAGCTG
1 ACGAGCTG
1140633 CAATTGGTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
24 22 0.26
25 61 0.72
26 1 0.01
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
ACGAGCTGAGAATCAGTAAGCTCTC
Found at i:1144413 original size:31 final size:31
Alignment explanation
Indices: 1144317--1144413 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
1144307 GTGAGTAATA
* * *
1144317 GTGGTGGAATGTGTTATATGTGGAAGCATTT
1 GTGGTGAAATATGTTATATGTGGAAGCCTTT
*** * *
1144348 GTGGTTGTTCTTTGTT-TCATGT--AAGCCTTA
1 GTGG-TGAAATATGTTAT-ATGTGGAAGCCTTT
1144378 GTGGTGAAATATGTTATATGTGGAAGCCTTT
1 GTGGTGAAATATGTTATATGTGGAAGCCTTT
1144409 GTGGT
1 GTGGT
1144414 TATTCCCTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
29 11 0.22
30 11 0.22
31 17 0.34
32 11 0.22
ACGTcount: A:0.20, C:0.07, G:0.31, T:0.42
Consensus pattern (31 bp):
GTGGTGAAATATGTTATATGTGGAAGCCTTT
Found at i:1144430 original size:61 final size:61
Alignment explanation
Indices: 1144315--1144430 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
1144305 ATGTGAGTAA
* * * ** * *
1144315 TAGTGGTGGAATGTGTTATATGTGGAAGCATTTGTGGTTGTTCTTTGTTTCATGTAAGCCT
1 TAGTGGTGAAATATGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGTAAGCCT
*
1144376 TAGTGGTGAAATATGTTATATGTGGAAGCCTTTGTGGTTATTCCCTATTACATGT
1 TAGTGGTGAAATATGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGT
1144431 GAACCTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.43
Consensus pattern (61 bp):
TAGTGGTGAAATATGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGTAAGCCT
Found at i:1144448 original size:61 final size:61
Alignment explanation
Indices: 1144328--1144448 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
1144318 TGGTGGAATG
* ** * * * *
1144328 TGTTATATGTGGAAGCATTTGTGGTTGTTCTTTGTTTCATGTAAGCCTTAGTGGTGAAATA
1 TGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGTAAGCCTTAGTAGAGAAATA
*
1144389 TGTTATATGTGGAAGCCTTTGTGGTTATTCCCTATTACATGTGAA-CCTTTA-TAGAGAAAT
1 TGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGT-AAGCC-TTAGTAGAGAAAT
1144449 CATTAAGGAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
61 45 0.90
62 5 0.10
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (61 bp):
TGTTATATGTGGAAGCATTTGTGGTTATTCCCTATTACATGTAAGCCTTAGTAGAGAAATA
Found at i:1144540 original size:30 final size:30
Alignment explanation
Indices: 1144501--1144557 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1144491 TCTAGACCCC
*
1144501 TTTGGGGCTATCTAATGATGTGTGGATGCT
1 TTTGGGGCTATCTAATGATGTATGGATGCT
* *
1144531 TTTGTGGCTATCTAATGGTGTATGGAT
1 TTTGGGGCTATCTAATGATGTATGGAT
1144558 ACCTCTATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.09, G:0.32, T:0.42
Consensus pattern (30 bp):
TTTGGGGCTATCTAATGATGTATGGATGCT
Found at i:1144569 original size:30 final size:30
Alignment explanation
Indices: 1144506--1144574 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
1144496 ACCCCTTTGG
* * * * *
1144506 GGCTATCTAATGATGTGTGGATGCTTTTGT
1 GGCTATCTAATGATGTATGGATACCTCTAT
*
1144536 GGCTATCTAATGGTGTATGGATACCTCTAT
1 GGCTATCTAATGATGTATGGATACCTCTAT
1144566 GGCTATCTA
1 GGCTATCTA
1144575 TGTAAAGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.39
Consensus pattern (30 bp):
GGCTATCTAATGATGTATGGATACCTCTAT
Found at i:1148335 original size:60 final size:61
Alignment explanation
Indices: 1148244--1148390 Score: 210
Period size: 61 Copynumber: 2.5 Consensus size: 61
1148234 GCTAAATCTA
* * *
1148244 TTATATAT-G-AGCCATTGTGGTTGTTCTCTGTTTCATGTGAGCC-TAGTAGCAAAATGTG
1 TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
* * *
1148302 TTATATATGGAAGCCTTTGTGGTTGTTTTCTGTTTCATGCGAGCCTTAGTGGCAGAATATG
1 TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
*
1148363 TTATATATGGAAGCCTTTGTGGCTGTTC
1 TTATATATGGAAGCCTTTGTGGTTGTTC
1148391 CCTATTACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 8 0.10
59 1 0.01
60 31 0.40
61 38 0.49
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (61 bp):
TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
Found at i:1149328 original size:26 final size:26
Alignment explanation
Indices: 1149269--1149328 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
1149259 TTTTCTTTTC
** *
1149269 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
*
1149295 TTTCTCTTTT-ATTTTTAGAGTAGAT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
1149320 TTTATTCTT
1 TTT-TTCTT
1149329 GTAGTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGAGTAGAT
Found at i:1150991 original size:19 final size:19
Alignment explanation
Indices: 1150967--1151004 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1150957 TTATCATACT
1150967 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
1150986 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
1151005 CTCCTCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATTTTTAAGAATTTAA
Found at i:1162096 original size:9 final size:9
Alignment explanation
Indices: 1162079--1162115 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
1162069 TGAGTTTTCG
1162079 AATTCGAAT
1 AATTCGAAT
*
1162088 AACTCGAAT
1 AATTCGAAT
1162097 AATTCGAAT
1 AATTCGAAT
1162106 AATTCGAAT
1 AATTCGAAT
1162115 A
1 A
1162116 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:1162499 original size:18 final size:19
Alignment explanation
Indices: 1162474--1162518 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1162464 ACTTTCTCTC
1162474 AAAC-TTTTA-TTTCCCCA
1 AAACTTTTTATTTTCCCCA
*
1162491 AAACTTTTTATTTTTCCCCT
1 AAACTTTTTA-TTTTCCCCA
1162511 AAACTTTT
1 AAACTTTT
1162519 ACTTCTCACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 5 0.21
20 15 0.62
ACGTcount: A:0.27, C:0.24, G:0.00, T:0.49
Consensus pattern (19 bp):
AAACTTTTTATTTTCCCCA
Found at i:1181099 original size:37 final size:35
Alignment explanation
Indices: 1181058--1181164 Score: 89
Period size: 32 Copynumber: 3.1 Consensus size: 35
1181048 TAATAATATT
1181058 TTAATACTTCAATATTAAATTTAATTTAATACTTATC
1 TTAATACTT-AATATT-AATTTAATTTAATACTTATC
* ** *
1181095 TTAATAGTATTTTATTAATTTAATATTAA-AGTTA--
1 TTAATACT-TAATATTAATTTAAT-TTAATACTTATC
*
1181129 TT-AT-CTTAATATTTAATTTAATTTAATATTTATC
1 TTAATACTTAATA-TTAATTTAATTTAATACTTATC
1181163 TT
1 TT
1181165 GTACATAAAC
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
31 7 0.12
32 15 0.27
33 2 0.04
34 4 0.07
36 12 0.21
37 15 0.27
38 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (35 bp):
TTAATACTTAATATTAATTTAATTTAATACTTATC
Found at i:1181131 original size:20 final size:19
Alignment explanation
Indices: 1181106--1181158 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1181096 TAATAGTATT
1181106 TTATTAATTTAATATTAAA
1 TTATTAATTTAATATTAAA
*
1181125 GTTATT-ATCTTAATATTTAA
1 -TTATTAAT-TTAATATTAAA
1181145 -T-TTAATTTAATATT
1 TTATTAATTTAATATT
1181159 TATCTTGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.33
18 3 0.10
19 2 0.07
20 15 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTATTAATTTAATATTAAA
Found at i:1185114 original size:26 final size:26
Alignment explanation
Indices: 1185078--1185129 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
1185068 ATTGCCAGAA
*
1185078 GGTTTTGATC-TTCAAATAAAATAGTT
1 GGTTTTGATCTTTC-AAGAAAATAGTT
1185104 GGTTTTGATCTTTCAAGAAAATAGTT
1 GGTTTTGATCTTTCAAGAAAATAGTT
1185130 TTTCTCTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (26 bp):
GGTTTTGATCTTTCAAGAAAATAGTT
Found at i:1192343 original size:51 final size:50
Alignment explanation
Indices: 1192259--1192384 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
1192249 CGGATATCCG
* * * *
1192259 GTGGCCTGCACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTTG-TACCAAAACTACC-TATTCACAAA
** * *
1192310 GTGGGTTTCACATAGTACCACACTTATG-ACCAAAACTATCTATTCTCAAA
1 GTGGCCTTCACATAGTACCACACTT-TGTACCAAAACTACCTATTCACAAA
1192360 GTGGCCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
1192385 GAGCCACTAG
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
50 31 0.49
51 27 0.43
52 3 0.05
53 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTTGTACCAAAACTACCTATTCACAAA
Found at i:1195929 original size:50 final size:50
Alignment explanation
Indices: 1195817--1195942 Score: 177
Period size: 50 Copynumber: 2.5 Consensus size: 50
1195807 GGATATCCGA
*
1195817 TGGCCTGCACATAGTACCAC-CTTTGTTGCCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACAC-TTGTTGCCAAAGCTA-CTTCTTCACAAAG
*
1195868 TGGCCTTCACATAGTACCACACTTG-TGACCAAAGCTA-TGTCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTTG-CCAAAGCTACT-TCTTCACAAAG
1195918 TGGCCTTCACATAGTACCACACTTG
1 TGGCCTTCACATAGTACCACACTTG
1195943 AGCCATTAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
49 1 0.01
50 37 0.53
51 31 0.44
52 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (50 bp):
TGGCCTTCACATAGTACCACACTTGTTGCCAAAGCTACTTCTTCACAAAG
Found at i:1200705 original size:40 final size:40
Alignment explanation
Indices: 1200630--1200741 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 40
1200620 ATAAACGCCA
* * *
1200630 CTAAAAATCAAGCATTAGCGGCGCTTTTATAAAAACACAT
1 CTAAAAGTCAAGCATTAGCGGCGCTTTTAGAAAAACACAG
* * * *
1200670 CTAAAGGTCAAGCATTAGCGGCGCCTTTT-GGAAAACGCCG
1 CTAAAAGTCAAGCATTAGCGGCG-CTTTTAGAAAAACACAG
* * *
1200710 CTAAAAGT-AAGCAATAGCGGCGTTTTTTGAAA
1 CTAAAAGTCAAGCATTAGCGGCGCTTTTAGAAA
1200742 GGCGCCGCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
38 4 0.07
39 16 0.27
40 34 0.58
41 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
CTAAAAGTCAAGCATTAGCGGCGCTTTTAGAAAAACACAG
Found at i:1200738 original size:39 final size:40
Alignment explanation
Indices: 1200624--1200755 Score: 99
Period size: 40 Copynumber: 3.3 Consensus size: 40
1200614 TGGATAATAA
* * * * *
1200624 ACGCCACTAAAAATCAAGCATTAGCGGCG-CTTTTATAAAA
1 ACGCCGCTAAAAGTCAAGCAATAGCGGCGCCTTTT-GAAAG
* ** * *
1200664 ACACATCTAAAGGTCAAGCATTAGCGGCGCCTTTTGGAAA-
1 ACGCCGCTAAAAGTCAAGCAATAGCGGCGCCTTTT-GAAAG
**
1200704 ACGCCGCTAAAAGT-AAGCAATAGCGGCGTTTTTTGAAAG
1 ACGCCGCTAAAAGTCAAGCAATAGCGGCGCCTTTTGAAAG
* *
1200743 GCGCCGCAAAAAG
1 ACGCCGCTAAAAG
1200756 CCTAAGCCCA
Statistics
Matches: 74, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
38 4 0.05
39 28 0.38
40 34 0.46
41 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (40 bp):
ACGCCGCTAAAAGTCAAGCAATAGCGGCGCCTTTTGAAAG
Found at i:1200845 original size:41 final size:41
Alignment explanation
Indices: 1200790--1200923 Score: 216
Period size: 41 Copynumber: 3.3 Consensus size: 41
1200780 TGAGTTTTTG
* * *
1200790 GGGCATTTAACGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
1200831 GGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1200872 GGGCCTTTAGCGGCGTTTTT-AGAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGA-AAAAGCGCCGCTAATGCTC
1200913 GGGCCTTTAGC
1 GGGCCTTTAGC
1200924 CACTAATGCT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.01
41 86 0.99
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:1200967 original size:63 final size:63
Alignment explanation
Indices: 1200863--1200986 Score: 214
Period size: 63 Copynumber: 2.0 Consensus size: 63
1200853 GAAAGCGCCG
1200863 CTAATGCTCGGGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCCA
1 CTAATGCTCGGGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCCA
* *
1200926 CTAATGCTCGGGCCTTTAGTGGCGTTTTT-GAAAAAGTGCCGCTAATGCTCGGGCCTTTAGC
1 CTAATGCTCGGGCCTTTAGCGGCGTTTTTAG-AAAAGCGCCGCTAATGCTCGGGCCTTTAGC
1200987 GACGTTTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 1 0.02
63 57 0.98
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (63 bp):
CTAATGCTCGGGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCCA
Found at i:1200983 original size:41 final size:41
Alignment explanation
Indices: 1200921--1201053 Score: 205
Period size: 41 Copynumber: 3.2 Consensus size: 41
1200911 TCGGGCCTTT
* *
1200921 AGCCACTAATGCTCGGGCCTTTAGTGGCGTTTTTGAAAAAG
1 AGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAG
* *
1200962 TGCCGCTAATGCTCGGGCCTTTAGCGACGTTTTTGAAAAAG
1 AGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAG
*
1201003 AGCCGCTAATACTCGGGCCTTTAGCGGCGTTTTTGAAAAAG
1 AGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAG
1201044 CA-CCGCTAAT
1 -AGCCGCTAAT
1201054 AATAATAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (41 bp):
AGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAG
Found at i:1201002 original size:104 final size:104
Alignment explanation
Indices: 1200822--1201027 Score: 333
Period size: 104 Copynumber: 2.0 Consensus size: 104
1200812 AAAAGCGCCG
* * *
1200822 CTAATGCTTGGGCCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
1 CTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACG
* *
1200887 TTTTTAGAAAAGCGCCGCTAATGCTCGGGCCTTTAGCCA
66 TTTTTAGAAAAGAGCCGCTAATACTCGGGCCTTTAGCCA
* *
1200926 CTAATGCTCGGGCCTTTAGTGGCGTTTTTGAAAAAGTGCCGCTAATGCTCGGGCCTTTAGCGACG
1 CTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACG
1200991 TTTTT-GAAAAAGAGCCGCTAATACTCGGGCCTTTAGC
66 TTTTTAG-AAAAGAGCCGCTAATACTCGGGCCTTTAGC
1201028 GGCGTTTTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 1 0.01
104 93 0.99
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.29
Consensus pattern (104 bp):
CTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGCCTTTAGCGACG
TTTTTAGAAAAGAGCCGCTAATACTCGGGCCTTTAGCCA
Found at i:1201553 original size:14 final size:14
Alignment explanation
Indices: 1201534--1201567 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
1201524 GTTTATGGGT
1201534 TTAGGGGTTAA-ATG
1 TTAGGGGTTAAGA-G
1201548 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
1201562 TTAGGG
1 TTAGGG
1201568 ATTTAAGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:1201778 original size:21 final size:22
Alignment explanation
Indices: 1201743--1201860 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 22
1201733 ATTTTAAGGT
*
1201743 TTAGGGA-TTATGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAGGGG
1201764 TT-GGGATTTAAGGTTTAGGGG
1 TTAGGGATTTAAGGTTTAGGGG
* * *
1201785 TTAGGGGTTTAAGGGTTAAGCGCG
1 TTAGGGATTTAA-GGTTTAG-GGG
* * * *
1201809 TTAGGGGTTAAAAG-TTAGGGA
1 TTAGGGATTTAAGGTTTAGGGG
* * *
1201830 TTATGGA-TTAAGGATTTAAGGT
1 TTAGGGATTTAAGG-TTTAGGGG
1201852 TTAGGGATT
1 TTAGGGATT
1201861 CAAGAGTCGG
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
20 8 0.11
21 23 0.31
22 22 0.30
23 8 0.11
24 13 0.18
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.36
Consensus pattern (22 bp):
TTAGGGATTTAAGGTTTAGGGG
Found at i:1204343 original size:118 final size:118
Alignment explanation
Indices: 1204220--1204572 Score: 697
Period size: 118 Copynumber: 3.0 Consensus size: 118
1204210 CACCTATGGC
1204220 CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1 CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1204285 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTTT
66 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTTT
1204338 CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1 CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1204403 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTTT
66 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTTT
*
1204456 CTGTTGTGGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1 CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
1204521 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTT
66 ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTT
1204573 ACCAGTCTTA
Statistics
Matches: 234, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 234 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (118 bp):
CTGTTGTAGATGTTTTTTCTGTTTAAGACGAGATTAACAAGTTATTTCTCCTTCTAGTATTAGAG
ATTGTATGGGGTGGTGAGATGTGCTTGGTAACTTTAGATTTGAGATAACTTTT
Found at i:1206332 original size:43 final size:41
Alignment explanation
Indices: 1206285--1206596 Score: 327
Period size: 43 Copynumber: 7.3 Consensus size: 41
1206275 GAACCGTACT
*
1206285 TTTAGCGACGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTG-T-AAAGCGCCGCTAAAGATCATGTTC
* *
1206328 TTTAGGGGCGTTTGTTGGTAAAGTGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTG-T-GTAAAGCGCCGCTAAAGATCATGTTC
*
1206371 TTTAGCGGCGTTTGTGTGTAAAGCGCCGCTAAAAATCATGTTC
1 TTTAGCGGCG-TT-TGTGTAAAGCGCCGCTAAAGATCATGTTC
* * * *
1206414 TTTAACGACGATTTTTGTAAAGCGCCGCTAAAAATCATGTTC
1 TTTAGCGGCG-TTTGTGTAAAGCGCCGCTAAAGATCATGTTC
* * * * *
1206456 TTTAACGACGATTTTTGTAAAGCGCCGCTAAAGGTAATGTTC
1 TTTAGCGGCG-TTTGTGTAAAGCGCCGCTAAAGATCATGTTC
* * *
1206498 TTTAGCGGTGTTTGTGGGTAAAGCGCCGCTAAAGTTCTTGTTC
1 TTTAGCGGCGTTTGT--GTAAAGCGCCGCTAAAGATCATGTTC
* * * * *
1206541 TTTAGCGGTGTTTGTGGGTAAAGTGCCACTAAAGAACATGATC
1 TTTAGCGGCGTTTGT--GTAAAGCGCCGCTAAAGATCATGTTC
1206584 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
1206597 TTTCACATAA
Statistics
Matches: 236, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
41 4 0.02
42 74 0.31
43 150 0.64
44 5 0.02
45 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTGTAAAGCGCCGCTAAAGATCATGTTC
Found at i:1206511 original size:127 final size:128
Alignment explanation
Indices: 1206304--1206544 Score: 351
Period size: 127 Copynumber: 1.9 Consensus size: 128
1206294 GTTTGTGATA
* ** * * *
1206304 AAAGCGCCGCTAAAGATCATGTTCTTTAGGGGCGTTTGTTGGTAAAGTGCCGCTAAAGATCATGT
1 AAAGCGCCGCTAAAAATCATGTTCTTTAACGACGTTTGTTGGTAAAGCGCCGCTAAAGATAATGT
*
1206369 TCTTTAGCGGCGTTTGTGTGTAAAGCGCCGCTAAAAATCATGTTCTTTAACGACGATTTTTGT
66 TCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAAATCATGTTCTTTAACGACGATTTTTGT
*
1206432 AAAGCGCCGCTAAAAATCATGTTCTTTAACGACGATTT-TT-GTAAAGCGCCGCTAAAGGTAATG
1 AAAGCGCCGCTAAAAATCATGTTCTTTAACGACG-TTTGTTGGTAAAGCGCCGCTAAAGATAATG
* ** *
1206495 TTCTTTAGCGGTGTTTGTGGGTAAAGCGCCGCTAAAGTTCTTGTTCTTTA
65 TTCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAAATCATGTTCTTTA
1206545 GCGGTGTTTG
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
127 65 0.65
128 32 0.32
129 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (128 bp):
AAAGCGCCGCTAAAAATCATGTTCTTTAACGACGTTTGTTGGTAAAGCGCCGCTAAAGATAATGT
TCTTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAAATCATGTTCTTTAACGACGATTTTTGT
Found at i:1219114 original size:24 final size:24
Alignment explanation
Indices: 1219082--1219128 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1219072 AAAACAAAAG
1219082 CTAAGGTGAGTAATTACTAAATAA
1 CTAAGGTGAGTAATTACTAAATAA
1219106 CTAAGGTGAGTAATTACTAAATA
1 CTAAGGTGAGTAATTACTAAATA
1219129 TTTATCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (24 bp):
CTAAGGTGAGTAATTACTAAATAA
Found at i:1221674 original size:92 final size:90
Alignment explanation
Indices: 1221563--1221746 Score: 305
Period size: 92 Copynumber: 2.0 Consensus size: 90
1221553 TATGATACAT
1221563 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
*
1221628 TAAATTGTTTTAGTATATAAATATCAC
66 TAAATTGTTTCA--ATATAAATATCAC
* * *
1221655 TAGGTCAAATTAGTAATAATATCGAAAGAAATTTATTACCTTGCATAACGTAGGATTAATGTGAT
1 TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
*
1221720 TAAATTGTTTCAATATATATATCAC
66 TAAATTGTTTCAATATAAATATCAC
1221745 TA
1 TA
1221747 TTACCTCACT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 14 0.16
92 73 0.84
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (90 bp):
TAGGTCAAATTAGTAATAATACCGAAAGAAATTTATTACCTTACATAACCTAGGATTAATGTGAT
TAAATTGTTTCAATATAAATATCAC
Found at i:1224629 original size:23 final size:21
Alignment explanation
Indices: 1224581--1224628 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
1224571 TGCAATTGAG
1224581 GCACACGCCTGTGTGGAAGAA
1 GCACACGCCTGTGTGGAAGAA
*
1224602 GCACACGTCTGTGTGGAAGAA
1 GCACACGCCTGTGTGGAAGAA
1224623 GCACAC
1 GCACAC
1224629 AACCGTATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (21 bp):
GCACACGCCTGTGTGGAAGAA
Found at i:1224639 original size:21 final size:21
Alignment explanation
Indices: 1224594--1224639 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1224584 CACGCCTGTG
** * *
1224594 TGGAAGAAGCACACGTCTGTG
1 TGGAAGAAGCACACAACCGTA
1224615 TGGAAGAAGCACACAACCGTA
1 TGGAAGAAGCACACAACCGTA
1224636 TGGA
1 TGGA
1224640 GGAGATACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.30, T:0.15
Consensus pattern (21 bp):
TGGAAGAAGCACACAACCGTA
Found at i:1224956 original size:12 final size:12
Alignment explanation
Indices: 1224939--1224967 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1224929 CACACGCCCA
1224939 TGTGGCCACCTG
1 TGTGGCCACCTG
1224951 TGTGGCCACCTG
1 TGTGGCCACCTG
1224963 TGTGG
1 TGTGG
1224968 TCACGAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.38, T:0.28
Consensus pattern (12 bp):
TGTGGCCACCTG
Found at i:1232312 original size:14 final size:13
Alignment explanation
Indices: 1232268--1232320 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 13
1232258 TAAATCTAGC
1232268 AATCTAAAATTCAAA
1 AATCT-AAATTC-AA
1232283 AATCT-AATTCAA
1 AATCTAAATTCAA
*
1232295 AATCTAAAGTTGAA
1 AATCTAAA-TTCAA
1232309 AATCCTAAATTC
1 AAT-CTAAATTC
1232321 TAAGAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 7 0.21
13 7 0.21
14 9 0.27
15 10 0.30
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (13 bp):
AATCTAAATTCAA
Done.