Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 89
Found at i:8816679 original size:19 final size:19
Alignment explanation
Indices: 8816655--8816691 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8816645 TGAAAATGAT
8816655 TTGATTTT-AAAAGTCAAAG
1 TTGATTTTGAAAA-TCAAAG
8816674 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAATCAAA
8816692 ATGAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (19 bp):
TTGATTTTGAAAATCAAAG
Found at i:8820539 original size:52 final size:52
Alignment explanation
Indices: 8820483--8820597 Score: 223
Period size: 52 Copynumber: 2.2 Consensus size: 52
8820473 AAGTCAGATC
8820483 TTTGTTTAAAATGATTTTATTAAGGGGGAACTTTTGATTTTTGAAATGATTT
1 TTTGTTTAAAATGATTTTATTAAGGGGGAACTTTTGATTTTTGAAATGATTT
8820535 TTTGTTTAAAATGATTTTATTAAGGGGGAACTTTTGATTTTTGAAATGATTT
1 TTTGTTTAAAATGATTTTATTAAGGGGGAACTTTTGATTTTTGAAATGATTT
8820587 TTTG-TTAAAAT
1 TTTGTTTAAAAT
8820598 TGACCACTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 7 0.11
52 56 0.89
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (52 bp):
TTTGTTTAAAATGATTTTATTAAGGGGGAACTTTTGATTTTTGAAATGATTT
Found at i:8830675 original size:20 final size:20
Alignment explanation
Indices: 8830650--8830694 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
8830640 TTGTTAACTC
8830650 AAAAGGAGTTGAATCGAATG
1 AAAAGGAGTTGAATCGAATG
8830670 AAAAGGAGTTGAATCGAATG
1 AAAAGGAGTTGAATCGAATG
8830690 AAAAG
1 AAAAG
8830695 AAATTAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.29, T:0.18
Consensus pattern (20 bp):
AAAAGGAGTTGAATCGAATG
Found at i:8838354 original size:5 final size:5
Alignment explanation
Indices: 8838346--8838371 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8838336 TATTATTATT
8838346 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
8838372 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:8846862 original size:25 final size:26
Alignment explanation
Indices: 8846834--8846886 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
8846824 TAAAAGTTGC
8846834 ATGGATAAAATGGTAAAGG-TAAAAT
1 ATGGATAAAATGGTAAAGGATAAAAT
8846859 ATGGATAAAATGGTAAAGGATAAAAT
1 ATGGATAAAATGGTAAAGGATAAAAT
8846885 AT
1 AT
8846887 TTTGTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (26 bp):
ATGGATAAAATGGTAAAGGATAAAAT
Found at i:8846881 original size:15 final size:15
Alignment explanation
Indices: 8846836--8846884 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
8846826 AAAGTTGCAT
8846836 GGATAAAATGGTAAA
1 GGATAAAATGGTAAA
*
8846851 GG-TAAAA---T-AT
1 GGATAAAATGGTAAA
8846861 GGATAAAATGGTAAA
1 GGATAAAATGGTAAA
8846876 GGATAAAAT
1 GGATAAAAT
8846885 ATTTTGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
10 3 0.11
11 6 0.22
14 6 0.22
15 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.22
Consensus pattern (15 bp):
GGATAAAATGGTAAA
Found at i:8856466 original size:40 final size:40
Alignment explanation
Indices: 8856410--8856571 Score: 272
Period size: 40 Copynumber: 4.0 Consensus size: 40
8856400 TGCAGGTTTA
*
8856410 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
* *
8856450 TAATACACTTTAGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
8856490 TAATACACTT-AGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCA-GTGTATATGGTGGGCACGACCTTATGTG
*
8856530 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
8856570 TA
1 TA
8856572 GCACTACAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 1 0.01
40 114 0.99
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
Found at i:8856750 original size:24 final size:24
Alignment explanation
Indices: 8856669--8856750 Score: 57
Period size: 25 Copynumber: 3.5 Consensus size: 24
8856659 GGAATAATGG
*
8856669 CAAGTGTATTGGTAAAATAAGCTTA
1 CAAGTTTA-TGGTAAAATAAGCTTA
* * *
8856694 CGAGCTTATGGTACAAAT--G-GT-
1 CAAGTTTATGGTA-AAATAAGCTTA
*
8856715 -AAGTATTTTGGTAAAATAAGCTTA
1 CAAGT-TTATGGTAAAATAAGCTTA
8856739 CAAGTTTATGGT
1 CAAGTTTATGGT
8856751 TAATAAATGG
Statistics
Matches: 41, Mismatches: 9, Indels: 15
0.63 0.14 0.23
Matches are distributed among these distances:
20 6 0.15
21 7 0.17
22 2 0.05
23 2 0.05
24 11 0.27
25 13 0.32
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (24 bp):
CAAGTTTATGGTAAAATAAGCTTA
Found at i:8858448 original size:25 final size:25
Alignment explanation
Indices: 8858394--8858451 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
8858384 CAATTTGTGA
*
8858394 TGGGACATTCTGATCGGGAATTATT
1 TGGGGCATTCTGATCGGGAATTATT
8858419 TGGGGCATTCTGATCGGGAATTATT
1 TGGGGCATTCTGATCGGGAATTATT
8858444 TGGGGCAT
1 TGGGGCAT
8858452 CCATCAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.34
Consensus pattern (25 bp):
TGGGGCATTCTGATCGGGAATTATT
Found at i:8860111 original size:16 final size:16
Alignment explanation
Indices: 8860090--8860131 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8860080 GCCACTGAGA
*
8860090 AAACATACATCAACAT
1 AAACATACATCAACAC
8860106 AAACATACATCAACAC
1 AAACATACATCAACAC
*
8860122 ACACATACAT
1 AAACATACAT
8860132 GATACATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACATACATCAACAC
Found at i:8860517 original size:74 final size:74
Alignment explanation
Indices: 8860389--8860530 Score: 166
Period size: 74 Copynumber: 1.9 Consensus size: 74
8860379 AAGTAGATTA
* * * *
8860389 TTTGTCTCTTTTGAGATTGTTTCTCTCGAAACAAAACGTTGTCTCTCTATAGACAATTTTTCTAA
1 TTTGTCTCTCTTGAGATAGTTTCTCTCGAAACAAAACGTTGTCTCGCTATAGACAATTTCTCTAA
8860454 AAAATAAAT
66 AAAATAAAT
*
8860463 TTTGTCTCTCTTGAGATAGTTT-TCTCTAAA-AAAACAAAG-TGTCTCGCT-TGAGACAATTTCT
1 TTTGTCTCTCTTGAGATAGTTTCTCTCGAAACAAAAC---GTTGTCTCGCTAT-AGACAATTTCT
*
8860524 CTTAAAA
62 CTAAAAA
8860531 CAAATTTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
72 5 0.09
73 8 0.14
74 44 0.76
75 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (74 bp):
TTTGTCTCTCTTGAGATAGTTTCTCTCGAAACAAAACGTTGTCTCGCTATAGACAATTTCTCTAA
AAAATAAAT
Found at i:8860739 original size:5 final size:5
Alignment explanation
Indices: 8860729--8860756 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8860719 GTTTCACTTG
8860729 AAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAA
8860757 ACTTTGAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:8860782 original size:29 final size:29
Alignment explanation
Indices: 8860749--8860848 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 29
8860739 AAACAAAACA
8860749 AAACAAAAACTTTGAGATTGTTTCCCTTG
1 AAACAAAAACTTTGAGATTGTTTCCCTTG
* * ** *
8860778 AAACAAGTTTTACCTCCCTTGAGACAGTTTCCCTCG
1 AAACAA----AAACT---TTGAGATTGTTTCCCTTG
*
8860814 AAACACAAACTTTGAGATTGTTTCCCTTG
1 AAACAAAAACTTTGAGATTGTTTCCCTTG
8860843 AAACAA
1 AAACAA
8860849 GTTGTCTCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
29 26 0.50
32 3 0.06
33 3 0.06
36 20 0.38
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (29 bp):
AAACAAAAACTTTGAGATTGTTTCCCTTG
Found at i:8861816 original size:81 final size:81
Alignment explanation
Indices: 8861706--8862087 Score: 552
Period size: 81 Copynumber: 4.7 Consensus size: 81
8861696 ATTCCATTAG
* * *
8861706 TCTTTTACTCAATGGTATTTAACCGTTCATCTAACAT-GCATAATTGACACCTTTCTTCCAAATG
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAAC-TGGCATAATTGACACCTTTCTGCCAAATG
*
8861770 CACAGATATGCCATTTA
65 CACAGATAGGCCATTTA
* * ** * *
8861787 TCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGAATAATTGACATATTTCTGCCAAAAGG
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
8861852 AAAGCTAGGCCATTTA
66 ACAGATAGGCCATTTA
* *
8861868 TCTTTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAAT
1 TC--TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAAT
*
8861933 GCACA-ACTAAGCCATTTA
64 GCACAGA-TAGGCCATTTA
* *
8861951 TCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
8862016 ACAGCTAGGCCATTTA
66 ACAGATAGGCCATTTA
8862032 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT
8862088 ATCAATACAC
Statistics
Matches: 265, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.00
81 195 0.74
83 69 0.26
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAGATAGGCCATTTA
Found at i:8861982 original size:164 final size:162
Alignment explanation
Indices: 8861706--8862088 Score: 608
Period size: 164 Copynumber: 2.4 Consensus size: 162
8861696 ATTCCATTAG
* * *
8861706 TCTTTTACTCAATGGTATTTAACCGTTCATCTAACAT-GCATAATTGACACCTTTCTTCCAAATG
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAAC-TGGCATAATTGACACCTTTCTACCAAATG
* *
8861770 CACAGATATGCCATTTATCTTTTACTCAACGGTCTTTAACCATTCATCTAACTGGAATAATTGAC
65 CACAGATAAGCCATTTATCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGGAATAATTGAC
* *
8861835 ATATTTCTGCCAAAAGGAAAGCTAGGCCATTTA
130 ACATTTCTGCCAAAAGCAAAGCTAGGCCATTTA
*
8861868 TCTTTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAAT
1 TC--TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAAT
* *
8861933 GCACA-ACTAAGCCATTTATCTTTTACTCAACAGTCTTTAACCGTTCATCTAACTGGCATAATTG
64 GCACAGA-TAAGCCATTTATCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGGAATAATTG
* *
8861997 ACACATTTCTGCCAAATGCACAGCTAGGCCATTTA
128 ACACATTTCTGCCAAAAGCAAAGCTAGGCCATTTA
8862032 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTA
1 TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTA
8862089 TCAATACACA
Statistics
Matches: 204, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
162 56 0.27
163 2 0.01
164 146 0.72
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (162 bp):
TCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGC
ACAGATAAGCCATTTATCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGGAATAATTGACA
CATTTCTGCCAAAAGCAAAGCTAGGCCATTTA
Found at i:8862383 original size:57 final size:57
Alignment explanation
Indices: 8862312--8862518 Score: 281
Period size: 57 Copynumber: 3.6 Consensus size: 57
8862302 TAAATTTCTT
* * * * **
8862312 ATACGGAAACTCATAAACAAATTATGAATTCCTTAACTTTTTGCACATTTAA-TGCCC
1 ATACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTCTGCACA-CAAACTGCCC
** * *
8862369 ATACAAAAATTCATAAACAAATTAGGAATTTCTTATCTTTCTGCACACAAACTGCCT
1 ATACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTCTGCACACAAACTGCCC
* * *
8862426 GTACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTGTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTCTGCACACAAACTGCCC
8862483 ATACGGAAATTCATAAACAAATTATGAATTTCTTAT
1 ATACGGAAATTCATAAACAAATTATGAATTTCTTAT
8862519 TTTTTTCACA
Statistics
Matches: 131, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
56 2 0.02
57 129 0.98
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (57 bp):
ATACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTCTGCACACAAACTGCCC
Found at i:8862513 original size:114 final size:114
Alignment explanation
Indices: 8862313--8862518 Score: 315
Period size: 114 Copynumber: 1.8 Consensus size: 114
8862303 AAATTTCTTA
* **
8862313 TACGGAAACTCATAAACAAATTATGAATTCCTTAACTTTTTGCACATTTAATGCCCATACAAAAA
1 TACGGAAACTCATAAACAAATTATGAATTCCTTAACTTTGTGCACATCAAATGCCCATACAAAAA
8862378 TTCATAAACAAATTAGGAATTTCTTATCTTTCTGCACACAAACTGCCTG
66 TTCATAAACAAATTAGGAATTTCTTATCTTTCTGCACACAAACTGCCTG
* * * **
8862427 TACGGAAATTCATAAACAAATTATGAATTTCTTATCTTTGTGCACA-CAAAGTGCCCATACGGAA
1 TACGGAAACTCATAAACAAATTATGAATTCCTTAACTTTGTGCACATCAAA-TGCCCATACAAAA
*
8862491 ATTCATAAACAAATTATGAATTTCTTAT
65 ATTCATAAACAAATTAGGAATTTCTTAT
8862519 TTTTTTCACA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 2 0.02
114 80 0.98
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (114 bp):
TACGGAAACTCATAAACAAATTATGAATTCCTTAACTTTGTGCACATCAAATGCCCATACAAAAA
TTCATAAACAAATTAGGAATTTCTTATCTTTCTGCACACAAACTGCCTG
Found at i:8862923 original size:19 final size:21
Alignment explanation
Indices: 8862879--8862930 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
8862869 CCCCCACCGT
*
8862879 GGTATCGATACTACTATACTAT
1 GGTATCGATACTACTATA-TAC
8862901 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
*
8862920 GGTACCGATAC
1 GGTATCGATAC
8862931 CATTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
21 4 0.14
22 12 0.43
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:8866635 original size:49 final size:46
Alignment explanation
Indices: 8866528--8866636 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
8866518 ATTTCATTTG
* * * * * *
8866528 GGCATCCTTTTATACCCATTATGTATTGTTTACGTTTTTCCTTTAT
1 GGCATCCTTTCATACCAAGTATGCATTGTTTACATTTTTCCTATAT
* * *
8866574 GACATCCATTCATACCAAGTATGCATTGTTGTACATTTTATATCTATAT
1 GGCATCCTTTCATACCAAGTATGCATTGTT-TACATTTT-T-CCTATAT
8866623 GGCATCCTTTCATA
1 GGCATCCTTTCATA
8866637 ACACTTATGC
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
46 24 0.49
47 7 0.14
48 1 0.02
49 17 0.35
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (46 bp):
GGCATCCTTTCATACCAAGTATGCATTGTTTACATTTTTCCTATAT
Found at i:8867151 original size:243 final size:242
Alignment explanation
Indices: 8866699--8867161 Score: 696
Period size: 243 Copynumber: 1.9 Consensus size: 242
8866689 CTCAATGATA
* * * * **
8866699 TTTAACCATTCATCTAACATGAATAATTGACACTTTTTTGTCAAATGCACAGCTCGACCATTTAT
1 TTTAACCATTCATCTAACATGAATAATTGACACATTTATGCCAAATGCACAACAAGACCATTTAT
* * *
8866764 CTTTTACTCAATGGTCTTTAATCGTTCATCTAACTGCATAATTGATACCTTTATGCCAAATGCAC
66 CTTTTACTCAATGGTCTTTAACCGTTCATCTAACTGCATAATTGACACCTTTATACCAAATGCAC
* * *
8866829 AACTGTGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACC
131 AACTGTGCCATTTATCTTTTACTCAACAGCCTTTAAACGTTCATCTAACTGGCATAATTGACACC
*
8866894 TTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACCCAACGGTC
196 TTTCTACCAAATGCACAACTAGGCCATTTATCTTTTACCCAACGGTC
* * *
8866941 TTTAATCATTCATCTAAC-TAGCATAATTGACACATTTATGCCAAATGCACAACAAGGCCATTTA
1 TTTAACCATTCATCTAACAT-GAATAATTGACACATTTATGCCAAATGCACAACAAGACCATTTA
* *
8867005 TCTTTTACTCAATGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCGAATGC
65 TCTTTTACTCAATGGTCTTTAACCGTTCATCTAACT-GCATAATTGACACCTTTATACCAAATGC
* *
8867070 ACAACTAG-GCCTTTTGTCTTTTACTCAACAGCCTTTAAACGTTCATCTAACTGGCATAATTGAC
129 ACAACT-GTGCCATTTATCTTTTACTCAACAGCCTTTAAACGTTCATCTAACTGGCATAATTGAC
*
8867134 ACCTTTCTACCAAATGCACAATTAGGCC
193 ACCTTTCTACCAAATGCACAACTAGGCC
8867162 TTAAATCTTT
Statistics
Matches: 197, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
241 1 0.01
242 88 0.45
243 107 0.54
244 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (242 bp):
TTTAACCATTCATCTAACATGAATAATTGACACATTTATGCCAAATGCACAACAAGACCATTTAT
CTTTTACTCAATGGTCTTTAACCGTTCATCTAACTGCATAATTGACACCTTTATACCAAATGCAC
AACTGTGCCATTTATCTTTTACTCAACAGCCTTTAAACGTTCATCTAACTGGCATAATTGACACC
TTTCTACCAAATGCACAACTAGGCCATTTATCTTTTACCCAACGGTC
Found at i:8867173 original size:81 final size:81
Alignment explanation
Indices: 8866684--8867161 Score: 629
Period size: 81 Copynumber: 5.9 Consensus size: 81
8866674 TCCTTTAGAA
* * * * * * * *
8866684 TTTTACTCAATGATATTTAACCATTCATCTAACAT-GAATAATTGACACTTTTTTGTCAAATGCA
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAAC-TGGCATAATTGACACCTTTCTGCCAAATGCA
* * *
8866748 CAGCTCGACCATTTATC
65 CAACTAGGCCATTTATC
* * * *
8866765 TTTTACTCAATGGTCTTTAATCGTTCATCTAACT-GCATAATTGATACCTTTATGCCAAATGCAC
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
8866829 AACT-GTGCCATTTATC
66 AACTAG-GCCATTTATC
8866845 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
8866910 AACTAGGCCATTTATC
66 AACTAGGCCATTTATC
* * * * * *
8866926 TTTTACCCAACGGTCTTTAATCATTCATCTAACTAGCATAATTGACACATTTATGCCAAATGCAC
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
8866991 AACAAGGCCATTTATC
66 AACTAGGCCATTTATC
* * *
8867007 TTTTACTCAATGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCGAATGCAC
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
* *
8867072 AACTAGGCCTTTTGTC
66 AACTAGGCCATTTATC
* * * *
8867088 TTTTACTCAACAGCCTTTAAACGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
1 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
*
8867153 AATTAGGCC
66 AACTAGGCC
8867162 TTAAATCTTT
Statistics
Matches: 354, Mismatches: 40, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 70 0.20
81 282 0.80
82 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (81 bp):
TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCAC
AACTAGGCCATTTATC
Found at i:8867428 original size:57 final size:56
Alignment explanation
Indices: 8867347--8867642 Score: 396
Period size: 57 Copynumber: 5.2 Consensus size: 56
8867337 AATTTCTTAA
* * * * *
8867347 TTTTTGCTCATAAAGTTCTTATACGGAAATTCATAAACAAATTATGAATTCCTTAAC
1 TTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATGAATT-CTTATC
** *
8867404 TTTTTGCACACTCAGTG-TTCATACGGAAATTCATAAACAAATTATGAAATTCTTATC
1 TTTTTGCACACAAAGTGCCT-ATACGGAAATTCATAAACAAATTATG-AATTCTTATC
* *
8867461 TTTTTGCACAGAAAGTGCCTATACGAAAATTCATAAACAAATTATGAAATTCTTATC
1 TTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATG-AATTCTTATC
*
8867518 ATTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATGAATTTCTTATC
1 TTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATGAA-TTCTTATC
* * *
8867575 TTTTTGCACACAAAGTGCCCATACGGAAATTAATAAACAAATTATGAATTTCTTATA
1 TTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATGAA-TTCTTATC
*
8867632 TTTTTGAACAC
1 TTTTTGCACAC
8867643 TCAGTGCCAT
Statistics
Matches: 216, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
56 4 0.02
57 207 0.96
58 5 0.02
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (56 bp):
TTTTTGCACACAAAGTGCCTATACGGAAATTCATAAACAAATTATGAATTCTTATC
Found at i:8868027 original size:19 final size:19
Alignment explanation
Indices: 8868003--8868043 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8867993 ATATCGATAC
* *
8868003 TACTATATTATGGTATCGA
1 TACTATATTACGGTACCGA
8868022 TACTATATTACGGTACCGA
1 TACTATATTACGGTACCGA
8868041 TAC
1 TAC
8868044 CATTTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (19 bp):
TACTATATTACGGTACCGA
Found at i:8868090 original size:20 final size:20
Alignment explanation
Indices: 8868065--8868120 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
8868055 TCTGTGATCA
*
8868065 ATTGTATCGATACCATCCTC
1 ATTGTATCGATACCACCCTC
*
8868085 ATTGTATCAATACTC-CCCTC
1 ATTGTATCGATAC-CACCCTC
8868105 -TTGGTATCGATACCAC
1 ATT-GTATCGATACCAC
8868121 TTGAATCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.10
20 26 0.87
21 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (20 bp):
ATTGTATCGATACCACCCTC
Found at i:8871818 original size:2 final size:2
Alignment explanation
Indices: 8871813--8871863 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
8871803 AGTTTTTGTT
8871813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8871855 TA TA TA TA T
1 TA TA TA TA T
8871864 CTCGAGTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8873336 original size:17 final size:16
Alignment explanation
Indices: 8873267--8873338 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
8873257 ATTCATGCGT
*
8873267 CTAGTTAATTGAATAAA
1 CTAGTTCATT-AATAAA
*
8873284 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAA-TAAA
* *
8873302 GTAGTTCATTCATCAAA
1 CTAGTTCATTAAT-AAA
8873319 CTAGTTCATTTAATAAA
1 CTAGTTCA-TTAATAAA
8873336 CTA
1 CTA
8873339 ACTCTTAATT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.02
17 28 0.62
18 16 0.36
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (16 bp):
CTAGTTCATTAATAAA
Found at i:8878811 original size:2 final size:2
Alignment explanation
Indices: 8878804--8878829 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8878794 AAATCGTTAC
8878804 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8878830 GGAAGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8881576 original size:3 final size:3
Alignment explanation
Indices: 8881568--8881592 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8881558 CCTTAACACT
8881568 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
8881593 AATCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:8886625 original size:14 final size:14
Alignment explanation
Indices: 8886606--8886640 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
8886596 GGAAAATAGA
8886606 GAAATGAGGAGAAG
1 GAAATGAGGAGAAG
8886620 GAAATGAGGAGAAG
1 GAAATGAGGAGAAG
8886634 GAAATGA
1 GAAATGA
8886641 AAGAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.40, T:0.09
Consensus pattern (14 bp):
GAAATGAGGAGAAG
Found at i:8887984 original size:16 final size:17
Alignment explanation
Indices: 8887965--8887999 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8887955 CACCCCCTTA
8887965 CTTT-AACACTTCTCCC
1 CTTTAAACACTTCTCCC
8887981 CTTTAAAACACTTCTCCC
1 CTTT-AAACACTTCTCCC
8887999 C
1 C
8888000 CTTTTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.34
Consensus pattern (17 bp):
CTTTAAACACTTCTCCC
Found at i:8890289 original size:21 final size:23
Alignment explanation
Indices: 8890235--8890284 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
8890225 CGATTCCACT
8890235 AGGGGGAATCGGTTCCCATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
*
8890258 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGGTTCCCATTCAA
8890280 AGGGG
1 AGGGG
8890285 TATCGATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.20
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCATTCAA
Found at i:8896164 original size:21 final size:21
Alignment explanation
Indices: 8896138--8896188 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
8896128 AACCATTCAG
*
8896138 GGGGAATCGGTACCCCCGTTC
1 GGGGAATCGGTACCCCCATTC
8896159 GGGGAATCGGTACCCCCATTC
1 GGGGAATCGGTACCCCCATTC
8896180 GGGGAATCG
1 GGGGAATCG
8896189 ATTCCCTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (21 bp):
GGGGAATCGGTACCCCCATTC
Found at i:8901788 original size:20 final size:21
Alignment explanation
Indices: 8901763--8901808 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8901753 GTTGTGGTCG
8901763 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAGCCGTTTGGGGATGA
* *
8901783 TTTCTAGCTGTTTGGGGATGT
1 TTTCTAGCCGTTTGGGGATGA
8901804 TTTCT
1 TTTCT
8901809 CTACAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.11, C:0.13, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATGA
Found at i:8901860 original size:21 final size:22
Alignment explanation
Indices: 8901836--8901878 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
8901826 CCATGATAGG
8901836 GAGTATTGGTAC-TCCATTAAT
1 GAGTATTGGTACTTCCATTAAT
*
8901857 GAGTATTGGTACTTCCTTTAAT
1 GAGTATTGGTACTTCCATTAAT
8901879 ATATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (22 bp):
GAGTATTGGTACTTCCATTAAT
Found at i:8902931 original size:19 final size:20
Alignment explanation
Indices: 8902907--8902950 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8902897 GAAATGTTCC
* *
8902907 AATTTCA-CATTCTGACATT
1 AATTTCAGCACTCTAACATT
8902926 AATTTCAGCACTCTAACATT
1 AATTTCAGCACTCTAACATT
8902946 AATTT
1 AATTT
8902951 TCAACATAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (20 bp):
AATTTCAGCACTCTAACATT
Found at i:8923047 original size:19 final size:20
Alignment explanation
Indices: 8923023--8923068 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
8923013 CAAAATGATC
*
8923023 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
8923042 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
8923062 TAATTTC
1 CAATTTC
8923069 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:8923133 original size:28 final size:29
Alignment explanation
Indices: 8923092--8923152 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
8923082 CAACTATGGA
*
8923092 ATAATTACACATTA-ACCCCATAATTTTT
1 ATAATTACACATTAGACCCCATAACTTTT
* *
8923120 ATAATTAC-CAATTAGGCCCCCTAACTTTT
1 ATAATTACAC-ATTAGACCCCATAACTTTT
8923149 ATAA
1 ATAA
8923153 AATTACAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.04
28 12 0.43
29 15 0.54
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (29 bp):
ATAATTACACATTAGACCCCATAACTTTT
Found at i:8926644 original size:18 final size:19
Alignment explanation
Indices: 8926611--8926651 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
8926601 CACTTTAATA
8926611 AAAATAATGAAAATTAATTT
1 AAAATAAT-AAAATTAATTT
8926631 AAAATAAT-AAATTAATTT
1 AAAATAATAAAATTAATTT
8926649 AAA
1 AAA
8926652 TAAAGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.62
20 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATAATAAAATTAATTT
Found at i:8929253 original size:22 final size:22
Alignment explanation
Indices: 8929174--8929254 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 22
8929164 TTAATCACGG
* * *
8929174 AAGTGCCTTATCACTAATACTA
1 AAGTGCCTTAGCACTGATACAA
* * *
8929196 AAGTGCCTCAGCATTGGTACAA
1 AAGTGCCTTAGCACTGATACAA
* * *
8929218 AACTGCATTCGCACTGATACAA
1 AAGTGCCTTAGCACTGATACAA
8929240 AAGTGCCTTAGCACT
1 AAGTGCCTTAGCACT
8929255 AGGGAGAGAA
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (22 bp):
AAGTGCCTTAGCACTGATACAA
Found at i:8930350 original size:44 final size:44
Alignment explanation
Indices: 8930300--8930390 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
8930290 AGCCCCTTCC
8930300 CAACGTGTGATATATGCACAATTAAGGAGGATCAACTTTTAGTT
1 CAACGTGTGATATATGCACAATTAAGGAGGATCAACTTTTAGTT
8930344 CAACGTGTGATATATGCACAATTAAGGAGGATCAACTTTTAGTT
1 CAACGTGTGATATATGCACAATTAAGGAGGATCAACTTTTAGTT
8930388 CAA
1 CAA
8930391 ACTGTGGGCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (44 bp):
CAACGTGTGATATATGCACAATTAAGGAGGATCAACTTTTAGTT
Found at i:8943737 original size:74 final size:74
Alignment explanation
Indices: 8943658--8943800 Score: 286
Period size: 74 Copynumber: 1.9 Consensus size: 74
8943648 AAATCAATTA
8943658 GAAATACATGTATAAGGTTTTGGATAAGGCTAGGGTTTGAAGGAAAGCTTGCTTTTGGATTGAAT
1 GAAATACATGTATAAGGTTTTGGATAAGGCTAGGGTTTGAAGGAAAGCTTGCTTTTGGATTGAAT
8943723 TTGATATGG
66 TTGATATGG
8943732 GAAATACATGTATAAGGTTTTGGATAAGGCTAGGGTTTGAAGGAAAGCTTGCTTTTGGATTGAAT
1 GAAATACATGTATAAGGTTTTGGATAAGGCTAGGGTTTGAAGGAAAGCTTGCTTTTGGATTGAAT
8943797 TTGA
66 TTGA
8943801 ATCAAGTTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.30, C:0.06, G:0.29, T:0.35
Consensus pattern (74 bp):
GAAATACATGTATAAGGTTTTGGATAAGGCTAGGGTTTGAAGGAAAGCTTGCTTTTGGATTGAAT
TTGATATGG
Found at i:8955513 original size:13 final size:13
Alignment explanation
Indices: 8955495--8955532 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8955485 GCAAGAACAT
8955495 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
8955508 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
8955521 GAA-AAGAAAAAA
1 GAAGAAGAAAAAA
8955533 CGAGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAA
Found at i:8955547 original size:26 final size:25
Alignment explanation
Indices: 8955499--8955551 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
8955489 GAACATGAAG
8955499 AAGAAAAAAGAAGAAGAAAAAAGAA
1 AAGAAAAAAGAAGAAGAAAAAAGAA
*
8955524 AAGAAAAAACGAGGAA-AAAGAAAGAA
1 AAGAAAAAA-GAAGAAGAAA-AAAGAA
8955550 AA
1 AA
8955552 ATGGAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAGAAGAAGAAAAAAGAA
Found at i:8955559 original size:17 final size:16
Alignment explanation
Indices: 8955509--8955572 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
8955499 AAGAAAAAAG
8955509 AAGAAGAAAAAA--GAA
1 AAGAA-AAAAAATGGAA
*
8955524 AAGAAAAAACGA-GGAAA
1 AAGAAAAAA-AATGG-AA
8955541 AAGAAAGAAAAATGGAA
1 AAGAAA-AAAAATGGAA
*
8955558 AAGAAATAAAATGGA
1 AAGAAAAAAAATGGA
8955573 TCAAGTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.10
15 6 0.15
16 9 0.22
17 17 0.41
18 5 0.12
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (16 bp):
AAGAAAAAAAATGGAA
Found at i:8955570 original size:16 final size:17
Alignment explanation
Indices: 8955539--8955572 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8955529 AAAACGAGGA
8955539 AAAAGAAAGAAAAATGG
1 AAAAGAAAGAAAAATGG
*
8955556 AAAAGAAA-TAAAATGG
1 AAAAGAAAGAAAAATGG
8955572 A
1 A
8955573 TCAAGTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAGAAAGAAAAATGG
Found at i:8958452 original size:122 final size:122
Alignment explanation
Indices: 8958232--8958465 Score: 355
Period size: 122 Copynumber: 1.9 Consensus size: 122
8958222 CAACCGAAAA
* * *
8958232 TCTTCAACATTGATGAGAAGTGTCCTCTTCAACACCAAATTATCTCCATATTGAACTGACTTTCT
1 TCTTCAACATGGATGAGAAGTGTCATCTTCAACACCAAATTATCTCCATATTGAACTGACTTCCT
* *
8958297 CAACGAGAAGGAACAACGTCGTCTTCAATAAACAATTTACTTGAAAGTGGCCAGAAC
66 CAACGAGAAGGAACAACGTCATCTTCAATAAACAATTTACCTGAAAGTGGCCAGAAC
* *
8958354 TCTTCAACATGGATGAGCAGTGTCATCTTCAACACCAAATTATCTCCATATTG-ATTCGACTTCC
1 TCTTCAACATGGATGAGAAGTGTCATCTTCAACACCAAATTATCTCCATATTGAACT-GACTTCC
* *
8958418 TTAACGAGAAGGAACAACGTCATCTTTAGA-AAACAATTTACCTGAAAG
65 TCAACGAGAAGGAACAACGTCATCTTCA-ATAAACAATTTACCTGAAAG
8958466 CAGCTAGAAC
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
121 2 0.02
122 98 0.97
123 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (122 bp):
TCTTCAACATGGATGAGAAGTGTCATCTTCAACACCAAATTATCTCCATATTGAACTGACTTCCT
CAACGAGAAGGAACAACGTCATCTTCAATAAACAATTTACCTGAAAGTGGCCAGAAC
Found at i:8958580 original size:66 final size:65
Alignment explanation
Indices: 8958501--8958727 Score: 255
Period size: 66 Copynumber: 3.4 Consensus size: 65
8958491 AGTAGATTGT
* * * *
8958501 ATGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTTGGAACAAAT
1 ATGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTCGAAACAAA-
8958566 TG
65 -G
* * * *
8958568 -TGTCTCTCTTGAGGCAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTTTCTCGAAACAAAG
1 ATGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTCGAAACAAAG
* *
8958632 ATTTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATT-ATTTCTCTCCAAA-AAG
1 ATGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGA-TTCTCTCGAAACAA-
8958695 AG
64 AG
* *
8958697 TTTTGTCTCACTTGAGAAAGTTT-TCCTTGAA
1 --ATGTCTCACTTGAGACAGTTTCT-CTTGAA
8958728 GCACAAATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
64 3 0.02
65 54 0.39
66 57 0.41
67 24 0.17
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (65 bp):
ATGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTCGAAACAAAG
Found at i:8958684 original size:30 final size:30
Alignment explanation
Indices: 8958585--8958686 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 30
8958575 CTTGAGGCAG
*
8958585 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTGAAACATAAACCTTTGAGATTA
* * * *
8958615 TTTTTCTCGAAACA-AAGATTTCTCACTTGAGA-CA
1 TTTCTCTTGAAACATAA-A---C-C-TTTGAGATTA
8958649 GTTTCTCTTGAAACATAAACCTTTGAGATTA
1 -TTTCTCTTGAAACATAAACCTTTGAGATTA
8958680 TTTCTCT
1 TTTCTCT
8958687 CCAAAAAGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
29 2 0.04
30 26 0.48
31 2 0.04
32 1 0.02
33 1 0.02
34 1 0.02
35 19 0.35
36 2 0.04
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTCTCTTGAAACATAAACCTTTGAGATTA
Found at i:8958748 original size:131 final size:131
Alignment explanation
Indices: 8958504--8958783 Score: 302
Period size: 131 Copynumber: 2.1 Consensus size: 131
8958494 AGATTGTATG
* ** *
8958504 TCTCCCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTTGGAACAAATTGT
1 TCTCACTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTTCCAAAAAATTGT
* ** * * * * **
8958569 GTCTCTCTTGAGGCAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTTTCTCGAAACAAAGA-
66 GTCTCACTTGAGAAAGTTTCTCTTGAAACACAAACCTTTAAAAATGTTTCACTCGAAA-AAA-AT
8958633 TT-
129 TTA
*
8958635 TCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATT-ATT-TCTCTCCAAAAAGAGT
1 TCTCACTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCT-TCCAAAAA-A-T
* * * *
8958698 TTTGTCTCACTTGAGAAAGTTT-TCCTTGAAGCACAAA-TTTTAAAAATGTTTCACTTGAAAAAA
63 TGTGTCTCACTTGAGAAAGTTTCT-CTTGAAACACAAACCTTTAAAAATGTTTCACTCGAAAAAA
8958761 ATTTA
127 ATTTA
8958766 TCTCACTTGAGATAGTTT
1 TCTCACTTGAGATAGTTT
8958784 TCCTCAAAAC
Statistics
Matches: 124, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
129 4 0.03
130 13 0.10
131 77 0.62
132 30 0.24
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (131 bp):
TCTCACTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGATTCTCTTCCAAAAAATTGT
GTCTCACTTGAGAAAGTTTCTCTTGAAACACAAACCTTTAAAAATGTTTCACTCGAAAAAAATTT
A
Found at i:8958805 original size:36 final size:34
Alignment explanation
Indices: 8958755--8958822 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 34
8958745 GTTTCACTTG
*
8958755 AAAAAAATTTATCTCACTTGAGATAGTTTTCCTC
1 AAAAAAATTTATCTCACATGAGATAGTTTTCCTC
*
8958789 AAAACAAATTTTATCTCGCATGAGATAGTTTTCC
1 AAAA-AAA-TTTATCTCACATGAGATAGTTTTCC
8958823 ATTGAAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 4 0.13
35 3 0.10
36 23 0.77
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (34 bp):
AAAAAAATTTATCTCACATGAGATAGTTTTCCTC
Found at i:8958901 original size:103 final size:100
Alignment explanation
Indices: 8958709--8958902 Score: 246
Period size: 101 Copynumber: 1.9 Consensus size: 100
8958699 TTGTCTCACT
* * *
8958709 TGAGAAAGTTTTCCTTGAAGCACAAATTTTAAAAATGTTTCACTTGAAAAAAATTTATCTCACTT
1 TGAGAAAGTTTTCCTTGAAACACAAATTTTAAAAATGTTTCACTCGAAAAAAATTTATCTCACCT
*
8958774 GAGATAGTTTTCCTCAAAACAAATTTTATCTCGCA
66 GAGATAGTTCTCCTCAAAACAAATTTTATCTCGCA
* * * **
8958809 TGAGATAGTTTTCCATTGAAACACAAATTTTGAAATTGTTTCACTCGAAACAAAATTTTATCTTG
1 TGAGAAAGTTTTCC-TTGAAACACAAATTTTAAAAATGTTTCACTCGAAA-AAAA-TTTATCTCA
**
8958874 CCTGAGATAGCTTCT-CTGGAAACAAATTT
63 CCTGAGATAG-TTCTCCTCAAAACAAATTT
8958903 CTTTCCACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
100 13 0.16
101 31 0.39
102 4 0.05
103 28 0.35
104 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (100 bp):
TGAGAAAGTTTTCCTTGAAACACAAATTTTAAAAATGTTTCACTCGAAAAAAATTTATCTCACCT
GAGATAGTTCTCCTCAAAACAAATTTTATCTCGCA
Found at i:8960892 original size:15 final size:14
Alignment explanation
Indices: 8960864--8960911 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
8960854 CTTTGTTCTA
8960864 ATTTTTGCTTTATT
1 ATTTTTGCTTTATT
*
8960878 ATTTGTTGCTCTATT
1 ATTT-TTGCTTTATT
*
8960893 ATTTCATGCTTTATT
1 ATTT-TTGCTTTATT
8960908 ATTT
1 ATTT
8960912 CATGCTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 4 0.14
15 25 0.86
ACGTcount: A:0.17, C:0.10, G:0.08, T:0.65
Consensus pattern (14 bp):
ATTTTTGCTTTATT
Found at i:8960912 original size:15 final size:15
Alignment explanation
Indices: 8960869--8960917 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
8960859 TTCTAATTTT
**
8960869 TGCTTTATTATTTGT
1 TGCTTTATTATTTCA
*
8960884 TGCTCTATTATTTCA
1 TGCTTTATTATTTCA
8960899 TGCTTTATTATTTCA
1 TGCTTTATTATTTCA
8960914 TGCT
1 TGCT
8960918 CATATGCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.16, C:0.14, G:0.10, T:0.59
Consensus pattern (15 bp):
TGCTTTATTATTTCA
Found at i:8973710 original size:16 final size:15
Alignment explanation
Indices: 8973685--8973714 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8973675 CACAGATTGT
8973685 AAAAAACATATTAAC
1 AAAAAACATATTAAC
8973700 AAAATAACATATTAA
1 AAAA-AACATATTAA
8973715 TCGTTGCGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAAACATATTAAC
Found at i:8974219 original size:42 final size:42
Alignment explanation
Indices: 8974147--8974232 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
8974137 CATCTATAGT
*
8974147 GGCATTTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGC
1 GGCAATTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGC
* * * *
8974189 GGCAATTTTTCAACAAACGCTGCAATAGAGTAGTACTTTAGC
1 GGCAATTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGC
8974231 GG
1 GG
8974233 TTTTTTTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
GGCAATTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGC
Found at i:8974255 original size:41 final size:41
Alignment explanation
Indices: 8974150--8974353 Score: 121
Period size: 42 Copynumber: 4.9 Consensus size: 41
8974140 CTATAGTGGC
* *
8974150 ATTTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGCGGCA
1 ATTTTTT-AACAAACAACGCAATAGAGTAGTACTTTAGCGG-A
* *
8974193 ATTTTTCAACAAAC-GCTGCAATAGAGTAGTACTTTAGCGG-
1 ATTTTTTAACAAACAAC-GCAATAGAGTAGTACTTTAGCGGA
* * * * * *
8974233 TTTTTTTATATAAACAACGCAATAG-GT-TTCATCTATAGTGGC
1 ATTTTTTA-ACAAACAACGCAATAGAGTAGT-A-CTTTAGCGGA
* * * * *
8974275 ATTTTTTCAACAAACATCGTAATAAAGTGGTACTTTAGTGG-
1 ATTTTTT-AACAAACAACGCAATAGAGTAGTACTTTAGCGGA
** ** *
8974316 CGTTTTTATACAAACGCCGCTATAGAGTAGTACTTTAG
1 ATTTTTTA-ACAAACAACGCAATAGAGTAGTACTTTAG
8974354 TGGCGTTTTT
Statistics
Matches: 126, Mismatches: 25, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.01
40 10 0.08
41 48 0.38
42 56 0.44
43 10 0.08
44 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (41 bp):
ATTTTTTAACAAACAACGCAATAGAGTAGTACTTTAGCGGA
Found at i:8974265 original size:125 final size:124
Alignment explanation
Indices: 8974128--8974353 Score: 328
Period size: 125 Copynumber: 1.8 Consensus size: 124
8974118 TAAATGTCAT
*
8974128 AATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGCGGCA
1 AATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCGCAACAAAGTAGTACTTTAGCGGC-
*
8974193 ATTTTTCA-ACAAACGCTGCAATAGAGTAGTACTTTAGCGGTTTTTTTATATAAACAACGC
65 ATTTTT-ATACAAACGCCGCAATAGAGTAGTACTTTAGCGGTTTTTTTATATAAACAACGC
* * * * * * * *
8974253 AATAGGTTTCATCTATAGTGGCATTTTTTCAACAAACATCGTAATAAAGTGGTACTTTAGTGGCG
1 AATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCGCAACAAAGTAGTACTTTAGCGGCA
*
8974318 TTTTTATACAAACGCCGCTATAGAGTAGTACTTTAG
66 TTTTTATACAAACGCCGCAATAGAGTAGTACTTTAG
8974354 TGGCGTTTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
123 1 0.01
124 32 0.36
125 56 0.63
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (124 bp):
AATAGGGTTCATCTATAGTGGCATTTTTTAAACAAACACCGCAACAAAGTAGTACTTTAGCGGCA
TTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGTTTTTTTATATAAACAACGC
Found at i:8974354 original size:41 final size:41
Alignment explanation
Indices: 8974143--8974422 Score: 176
Period size: 41 Copynumber: 6.8 Consensus size: 41
8974133 GGTTCATCTA
* * * * *
8974143 TAGTGGCATTTTTTAAACAAACACCGCAACAGAGTAGTACTT
1 TAGTGGC-GTTTTTATACAAACGCCGCTATAGAGTAGTACTT
* * * *
8974185 TAGCGGCAATTTTTCA-ACAAACGCTGCAATAGAGTAGTACTT
1 TAGTGGC-GTTTTT-ATACAAACGCCGCTATAGAGTAGTACTT
* ** * ** * * *
8974227 TAGCGGTTTTTTTATATAAACAACGCAATAG-GT-TTCATCTA
1 TAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGT-A-CTT
* ** * *
8974268 TAGTGGCATTTTT-TCAACAAACATCG-TAATAAAGTGGTACTT
1 TAGTGGCGTTTTTAT--ACAAACGCCGCT-ATAGAGTAGTACTT
8974310 TAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTT
* * *
8974351 TAGTGGCGTTTTTATA-AAATCGTCGCTATAGACTTGTACTT
1 TAGTGGCGTTTTTATACAAA-CGCCGCTATAGAGTAGTACTT
* * *
8974392 TAGTGGTGTTTTTCTTCAAACGCCGCTATAG
1 TAGTGGCGTTTTTATACAAACGCCGCTATAG
8974423 TTTGTTCTAT
Statistics
Matches: 191, Mismatches: 34, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
39 1 0.01
40 8 0.04
41 106 0.55
42 70 0.37
43 5 0.03
44 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTT
Found at i:8974355 original size:83 final size:82
Alignment explanation
Indices: 8974143--8974363 Score: 212
Period size: 83 Copynumber: 2.7 Consensus size: 82
8974133 GGTTCATCTA
* * * * * *
8974143 TAGTGGCATTTTTTAAACAAACACCGCAACAGAGTAGTACTTTAGCGGCAATTTTTCAACAAACG
1 TAGTGGC-GTTTTTATACAAACACCGCAATAGAGTAGTACTTTAGTGGCATTTTTTCAACAAACT
*
8974208 CTGCAATAGAGTAGTACTT
65 C-GTAATAGAGTAGTACTT
* ** * * * *
8974227 TAGCGGTTTTTTTATATAAACAACGCAATAG-GT-TTCATCTATAGTGGCATTTTTTCAACAAAC
1 TAGTGGCGTTTTTATACAAACACCGCAATAGAGTAGT-A-CTTTAGTGGCATTTTTTCAACAAAC
* *
8974290 ATCGTAATAAAGTGGTACTT
64 -TCGTAATAGAGTAGTACTT
* * *
8974310 TAGTGGCGTTTTTATACAAACGCCGCTATAGAGTAGTACTTTAGTGGCGTTTTT
1 TAGTGGCGTTTTTATACAAACACCGCAATAGAGTAGTACTTTAGTGGCATTTTT
8974364 ATAAAATCGT
Statistics
Matches: 108, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
81 1 0.01
82 3 0.03
83 94 0.87
84 9 0.08
85 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (82 bp):
TAGTGGCGTTTTTATACAAACACCGCAATAGAGTAGTACTTTAGTGGCATTTTTTCAACAAACTC
GTAATAGAGTAGTACTT
Found at i:8978886 original size:42 final size:42
Alignment explanation
Indices: 8978765--8978936 Score: 238
Period size: 42 Copynumber: 4.0 Consensus size: 42
8978755 AAGTTAATTA
*
8978765 GCGGCGTTTGTATCTAAAAATGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTT
* *
8978808 GCAGCGTTTATTCCAAAAA-GCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
8978849 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
* * * * *
8978891 ACGGCGTTCGTTCCAAAAAACGCTGCTATAGATCTTGACCTATT
1 GCGGCGTTTGTTCC-AAAAATGCCGCTATAGATC-TGACCTTTT
8978935 GC
1 GC
8978937 AGCTTTTTTT
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 39 0.34
42 41 0.36
43 26 0.23
44 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGACCTTTT
Found at i:8978905 original size:83 final size:87
Alignment explanation
Indices: 8978765--8978936 Score: 253
Period size: 83 Copynumber: 2.0 Consensus size: 87
8978755 AAGTTAATTA
* * *
8978765 GCGGCGTTTGTATCTAAAAATGCCGCTATAGATCTGACCTTTTGCAGCGTTTATTCC-AAAAA-G
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTGACCTTTTACAGCGTTCATTCCAAAAAACG
*
8978828 CCGCTATAGATC-TGACCTTTT
66 CCGCTATAGATCTTGACCTATT
* *
8978849 GCGGCGTTTGT-TCCAAAAATGCCGCTATAGATCTGACCTTTTACGGCGTTCGTTCCAAAAAACG
1 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTGACCTTTTACAGCGTTCATTCCAAAAAACG
*
8978913 CTGCTATAGATCTTGACCTATT
66 CCGCTATAGATCTTGACCTATT
8978935 GC
1 GC
8978937 AGCTTTTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 40 0.51
84 16 0.21
85 12 0.15
86 10 0.13
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (87 bp):
GCGGCGTTTGTATCCAAAAATGCCGCTATAGATCTGACCTTTTACAGCGTTCATTCCAAAAAACG
CCGCTATAGATCTTGACCTATT
Found at i:8983299 original size:2 final size:2
Alignment explanation
Indices: 8983294--8983355 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
8983284 TTTACTAATA
*
8983294 AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT A- AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8983334 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
8983356 CAGGTTATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8983542 original size:25 final size:26
Alignment explanation
Indices: 8983520--8983574 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
8983510 TACTTTTATT
8983520 AAAAATATG-TGGAATTATTTTTAAA
1 AAAAATATGATGGAATTATTTTTAAA
8983545 AAAAATATGATATGGAATTA-TTTTAAA
1 AAAAATATG--ATGGAATTATTTTTAAA
8983572 AAA
1 AAA
8983575 GTTAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 9 0.33
27 10 0.37
28 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (26 bp):
AAAAATATGATGGAATTATTTTTAAA
Found at i:8995117 original size:26 final size:26
Alignment explanation
Indices: 8995088--8995144 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
8995078 TCTATGACAC
8995088 GCATTTATGACACAG-ATTTATGAAGT
1 GCATTTATGACAC-GTATTTATGAAGT
* *
8995114 GCATTTATGACGCGTATTTATGACGT
1 GCATTTATGACACGTATTTATGAAGT
8995140 GCATT
1 GCATT
8995145 CGTGTGTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (26 bp):
GCATTTATGACACGTATTTATGAAGT
Found at i:8995138 original size:13 final size:13
Alignment explanation
Indices: 8995080--8995144 Score: 60
Period size: 13 Copynumber: 5.0 Consensus size: 13
8995070 GTCATAAATC
*
8995080 TATGACACGCATT
1 TATGACGCGCATT
*
8995093 TATGACACAG-ATT
1 TATGACGC-GCATT
* *
8995106 TATGAAGTGCATT
1 TATGACGCGCATT
*
8995119 TATGACGCGTATT
1 TATGACGCGCATT
*
8995132 TATGACGTGCATT
1 TATGACGCGCATT
8995145 CGTGTGTCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 1 0.02
13 40 0.95
14 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:9001662 original size:14 final size:14
Alignment explanation
Indices: 9001638--9001672 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
9001628 AGTGTCATTA
9001638 TATTA-TAATATAT
1 TATTATTAATATAT
9001651 TATTATTAATATAT
1 TATTATTAATATAT
*
9001665 TATCATTA
1 TATTATTA
9001673 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTAATATAT
Found at i:9003301 original size:21 final size:22
Alignment explanation
Indices: 9003257--9003308 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
9003247 CACTTTGTTT
*
9003257 TATTATTTTAATATAAATATTA
1 TATTATTTTAATATAAATAATA
9003279 TATTATTTT-AT-TAGAATAATA
1 TATTATTTTAATATA-AATAATA
*
9003300 TAATATTTT
1 TATTATTTT
9003309 GGTGACCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTATTTTAATATAAATAATA
Found at i:9004169 original size:45 final size:46
Alignment explanation
Indices: 9004084--9004171 Score: 110
Period size: 45 Copynumber: 1.9 Consensus size: 46
9004074 TATTGCTTTA
* * *
9004084 TTTTCCGAATAAATGCATGAGAACTAGAAATCATATGGTTAGGTTT
1 TTTTCCAAACAAATGCATGAGAACTAGAAAGCATATGGTTAGGTTT
9004130 TTTTCCAAACAAA-GCATG-GAACTAGAAAAGCATGA-GGTTAGG
1 TTTTCCAAACAAATGCATGAGAACTAG-AAAGCAT-ATGGTTAGG
9004172 ATGTATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 7 0.19
45 18 0.49
46 12 0.32
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTTCCAAACAAATGCATGAGAACTAGAAAGCATATGGTTAGGTTT
Found at i:9009964 original size:20 final size:20
Alignment explanation
Indices: 9009939--9010018 Score: 106
Period size: 20 Copynumber: 4.0 Consensus size: 20
9009929 ATTTCCCACA
9009939 AATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
* * *
9009959 AATTTGTAAAACCTCCGAGT
1 AATTTGTAAAGCCTTCGGGT
*
9009979 TATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAGCCTTCGGGT
* *
9009999 AATTTGTAAATCCTTTGGGT
1 AATTTGTAAAGCCTTCGGGT
9010019 CGTATGTCAG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
AATTTGTAAAGCCTTCGGGT
Found at i:9010431 original size:88 final size:87
Alignment explanation
Indices: 9010156--9010444 Score: 321
Period size: 88 Copynumber: 3.3 Consensus size: 87
9010146 TCGAATCATT
* * * *
9010156 TTCAACCTTCACGAAAGAGTAGTGAAATAACCCAACCTCGAATCTAAACTTCACAGAGAAG-TAG
1 TTCAACCTTCACGGAAGAGTAGTGAAGTAATCCAACCTCGAATCTGAACTTCAC-G-GAAGATAG
* * *
9010220 TGAAACAGATTTTTTTCAAGTCAA
64 TGAAACAAATTATTTTCAAGTAAA
* * * * *
9010244 TTCAACCTTTACGGAAGAGTAATAAAGTAATCCAACCTCGAATATGAACTTCACAGAAGAGTAGT
1 TTCAACCTTCACGGAAGAGTAGTGAAGTAATCCAACCTCGAATCTGAACTTCACGGAAGA-TAGT
*
9010309 GAAACAAATTCTTTTCAAGTAAA
65 GAAACAAATTATTTTCAAGTAAA
* * *
9010332 TTCAACCTTCATGGAAGAGTAGTGAAGTAATCCAACCTCGAGTCTGATCTTCACGGAAGTATAGT
1 TTCAACCTTCACGGAAGAGTAGTGAAGTAATCCAACCTCGAATCTGAACTTCACGGAAG-ATAGT
* *
9010397 GGAAA-ATATTATTTTCAAGTTAA
65 -GAAACAAATTATTTTCAAGTAAA
* ***
9010420 TTCAGCCTTCATATAAGAGTAGTGA
1 TTCAACCTTCACGGAAGAGTAGTGA
9010445 TGTAGGAGAG
Statistics
Matches: 171, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
86 4 0.02
88 162 0.95
89 5 0.03
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (87 bp):
TTCAACCTTCACGGAAGAGTAGTGAAGTAATCCAACCTCGAATCTGAACTTCACGGAAGATAGTG
AAACAAATTATTTTCAAGTAAA
Found at i:9010440 original size:176 final size:177
Alignment explanation
Indices: 9010116--9010440 Score: 408
Period size: 176 Copynumber: 1.8 Consensus size: 177
9010106 AAGTCTGATA
* **
9010116 TTCACAGAAGAGTAGTTAAACAAATTCTTCTCGAATCATTTTCAACCTTCACGAAAGAGTAGTGA
1 TTCACAGAAGAGTAGTGAAACAAATTCTTCTCGAATCAAATTCAACCTTCACGAAAGAGTAGTGA
*
9010181 AATAACCCAACCTCGAATCTAAACTTCACAGAGAAGTAGTGAAACAGATTTTTTTCAAGTCAATT
66 AATAACCCAACCTCGAATCTAAACTTCACAGAGAAGTAGTGAAACAGATTATTTTCAAGTCAATT
* *
9010246 CAACCTTTACGGAAGAGTAATAAAGTAATCCAACCTCGAATATGAAC
131 CAACCTTCACAGAAGAGTAATAAAGTAATCCAACCTCGAATATGAAC
* * *
9010293 TTCACAGAAGAGTAGTGAAACAAATTCTTTTC-AAGT-AAATTCAACCTTCATGGAAGAGTAGTG
1 TTCACAGAAGAGTAGTGAAACAAATTCTTCTCGAA-TCAAATTCAACCTTCACGAAAGAGTAGTG
* * * * * * *
9010356 AAGTAATCCAACCTCGAGTCTGATCTTCAC-G-GAAGTATAGTGGAAA-ATATTATTTTCAAGTT
65 AAATAACCCAACCTCGAATCTAAACTTCACAGAGAAG--TAGT-GAAACAGATTATTTTCAAGTC
* * *
9010418 AATTCAGCCTTCATATAAGAGTA
127 AATTCAACCTTCACAGAAGAGTA
9010441 GTGATGTAGG
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
174 4 0.03
175 1 0.01
176 85 0.68
177 35 0.28
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (177 bp):
TTCACAGAAGAGTAGTGAAACAAATTCTTCTCGAATCAAATTCAACCTTCACGAAAGAGTAGTGA
AATAACCCAACCTCGAATCTAAACTTCACAGAGAAGTAGTGAAACAGATTATTTTCAAGTCAATT
CAACCTTCACAGAAGAGTAATAAAGTAATCCAACCTCGAATATGAAC
Found at i:9010649 original size:3 final size:3
Alignment explanation
Indices: 9010636--9010685 Score: 68
Period size: 3 Copynumber: 17.3 Consensus size: 3
9010626 ATATATATAA
* *
9010636 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAC TA- TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9010682 TAT T
1 TAT T
9010686 TACAAGACCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9015492 original size:17 final size:17
Alignment explanation
Indices: 9015467--9015500 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9015457 ATTTATCTCA
*
9015467 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
9015484 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
9015501 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:9021755 original size:17 final size:18
Alignment explanation
Indices: 9021733--9021766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9021723 GATGCTGAGA
9021733 CCCTAG-GTACCAATACT
1 CCCTAGAGTACCAATACT
*
9021750 CCCTAGAGTACCGATAC
1 CCCTAGAGTACCAATAC
9021767 CAAAATGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (18 bp):
CCCTAGAGTACCAATACT
Found at i:9034922 original size:2 final size:2
Alignment explanation
Indices: 9034910--9034940 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9034900 CATCTAATAA
9034910 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9034941 GAATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9035437 original size:2 final size:2
Alignment explanation
Indices: 9035430--9035472 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9035420 AAAAATCAGC
9035430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9035472 A
1 A
9035473 GATAGATGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9039794 original size:187 final size:186
Alignment explanation
Indices: 9039474--9039866 Score: 673
Period size: 187 Copynumber: 2.1 Consensus size: 186
9039464 ATAAAATTTT
*
9039474 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCCAATTAATAA
**
9039539 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATTTTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
9039604 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-GTTTTTTTAAATTAAA
9039661 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAA-CCAAATTAATA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCC-AATTAATA
*
9039725 ATTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
65 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATT
*
9039790 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAAATTATA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAAATTAAA
* *
9039847 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
9039867 AATTAGAAAA
Statistics
Matches: 196, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
185 8 0.04
186 25 0.13
187 163 0.83
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (186 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTAAATTAAA
Found at i:9039820 original size:40 final size:38
Alignment explanation
Indices: 9039775--9039870 Score: 93
Period size: 40 Copynumber: 2.4 Consensus size: 38
9039765 TTAATTAAAA
* *
9039775 AAATTATATAAAATTTTTATTTTATAATTATATATTATTT
1 AAATTATATAAAATTTTT-TTTTA-AATTATAAAATATTT
* *
9039815 AAATTAATTATAAACTGTTTTTTTAAATTATAAAATATTT
1 AAATT-A-TATAAAATTTTTTTTTAAATTATAAAATATTT
* *
9039855 AATTTTTATATAAATT
1 AAATTATATA-AAATT
9039871 AGAAAATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
38 4 0.09
39 3 0.07
40 22 0.49
41 6 0.13
42 10 0.22
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
AAATTATATAAAATTTTTTTTTAAATTATAAAATATTT
Found at i:9045696 original size:14 final size:14
Alignment explanation
Indices: 9045677--9045706 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9045667 ACATGTTTTG
9045677 ATTGAATAAAGTTT
1 ATTGAATAAAGTTT
9045691 ATTGAATAAAGTTT
1 ATTGAATAAAGTTT
9045705 AT
1 AT
9045707 CTTTGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTGAATAAAGTTT
Found at i:9047572 original size:41 final size:41
Alignment explanation
Indices: 9047443--9047656 Score: 171
Period size: 43 Copynumber: 5.1 Consensus size: 41
9047433 ATAAAAATTA
** * *
9047443 GCGGCGTTTGTATCAGAAACGCCACTATAGAACCTG-CCTTTT
1 GCGGCGTTTGTAT-A-AAAAACAACTATAGAACCTGACCTATT
* * ** * *
9047485 ACGACGTTTGTATAAAAAATACTGCTATAGAACCTGGCCTACT
1 GCGGCGTTTGTAT-AAAAA-ACAACTATAGAACCTGACCTATT
* * *
9047528 GCGGCATATGTATAAAAAACAACTATAGAACCTGACCTGTT
1 GCGGCGTTTGTATAAAAAACAACTATAGAACCTGACCTATT
** * * *
9047569 GCGGCGTTTGTATAAAAAACGCTGCTATGGAACCTGGCCTGTT
1 GCGGCGTTTGTATAAAAAA--CAACTATAGAACCTGACCTATT
*
9047612 GCGGCGTTTGTATAAAAACACGACTATA-AAGCCTGACCTATT
1 GCGGCGTTTGTATAAAAA-ACAACTATAGAA-CCTGACCTATT
9047654 GCG
1 GCG
9047657 ACGTGAAAGT
Statistics
Matches: 137, Mismatches: 29, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
41 40 0.29
42 47 0.34
43 49 0.36
44 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAAACAACTATAGAACCTGACCTATT
Found at i:9047594 original size:84 final size:85
Alignment explanation
Indices: 9047466--9047660 Score: 252
Period size: 84 Copynumber: 2.3 Consensus size: 85
9047456 CAGAAACGCC
* * *
9047466 ACTATAGAACCTG-CCTTTTACGACGTTTGTATAAAAAATACTGCTATAGAACCTGGCCTACTGC
1 ACTATAGAACCTGACCTATTGCGACGTTTGTATAAAAAACACTGCTATAGAACCTGGCCTACTGC
9047530 GGCATATGTATAAAAA-ACA
66 GGCATATGTATAAAAACACA
* * * * **
9047549 ACTATAGAACCTGACCTGTTGCGGCGTTTGTATAAAAAACGCTGCTATGGAACCTGGCCTGTTGC
1 ACTATAGAACCTGACCTATTGCGACGTTTGTATAAAAAACACTGCTATAGAACCTGGCCTACTGC
* * *
9047614 GGCGTTTGTATAAAAACACG
66 GGCATATGTATAAAAACACA
9047634 ACTATA-AAGCCTGACCTATTGCGACGT
1 ACTATAGAA-CCTGACCTATTGCGACGT
9047661 GAAAGTAAGA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
83 13 0.14
84 59 0.61
85 24 0.25
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (85 bp):
ACTATAGAACCTGACCTATTGCGACGTTTGTATAAAAAACACTGCTATAGAACCTGGCCTACTGC
GGCATATGTATAAAAACACA
Found at i:9047614 original size:43 final size:43
Alignment explanation
Indices: 9047443--9047629 Score: 200
Period size: 43 Copynumber: 4.4 Consensus size: 43
9047433 ATAAAAATTA
* * * *
9047443 GCGGCGTTTGTATCAGAAACGCCACTATAGAACCT-GCCTTTT
1 GCGGCGTTTGTATAAAAAACGCTACTATAGAACCTGGCCTGTT
* * ** * **
9047485 ACGACGTTTGTATAAAAAATACTGCTATAGAACCTGGCCTACT
1 GCGGCGTTTGTATAAAAAACGCTACTATAGAACCTGGCCTGTT
* * * *
9047528 GCGGCATATGTATAAAAAA--CAACTATAGAACCTGACCTGTT
1 GCGGCGTTTGTATAAAAAACGCTACTATAGAACCTGGCCTGTT
* *
9047569 GCGGCGTTTGTATAAAAAACGCTGCTATGGAACCTGGCCTGTT
1 GCGGCGTTTGTATAAAAAACGCTACTATAGAACCTGGCCTGTT
9047612 GCGGCGTTTGTATAAAAA
1 GCGGCGTTTGTATAAAAA
9047630 CACGACTATA
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
41 34 0.29
42 27 0.23
43 56 0.48
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGTATAAAAAACGCTACTATAGAACCTGGCCTGTT
Found at i:9049042 original size:17 final size:17
Alignment explanation
Indices: 9049020--9049072 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
9049010 AATTAAGAGT
9049020 TAGTTTAATAAATGAAC
1 TAGTTTAATAAATGAAC
* * *
9049037 TAGTTTGATGAATG-AG
1 TAGTTTAATAAATGAAC
*
9049053 TCAGTTTAATTAATGAAC
1 T-AGTTTAATAAATGAAC
9049071 TA
1 TA
9049073 ACTTTATGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 2 0.07
17 24 0.86
18 2 0.07
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (17 bp):
TAGTTTAATAAATGAAC
Found at i:9049085 original size:18 final size:17
Alignment explanation
Indices: 9049064--9049104 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
9049054 CAGTTTAATT
* *
9049064 AATGAACTAACTTTATG
1 AATGAACTAAATTCATG
9049081 CAATGAACTAAATTCATG
1 -AATGAACTAAATTCATG
9049099 AATGAA
1 AATGAA
9049105 GTAGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
AATGAACTAAATTCATG
Found at i:9050652 original size:16 final size:16
Alignment explanation
Indices: 9050631--9050682 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
9050621 CTCTCGTGCC
9050631 TTTTTCCACTCTTGCT
1 TTTTTCCACTCTTGCT
*
9050647 TTTTTCCACTCTTGTTT
1 TTTTTCCACTCTTG-CT
9050664 TTTTTCCACTCTTGCT
1 TTTTTCCACTCTTGCT
9050680 TTT
1 TTT
9050683 CTTTTCAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 18 0.55
17 15 0.45
ACGTcount: A:0.06, C:0.27, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTTTCCACTCTTGCT
Found at i:9050666 original size:17 final size:17
Alignment explanation
Indices: 9050631--9050688 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
9050621 CTCTCGTGCC
*
9050631 TTTTTCCACTCTTG-CT
1 TTTTTCCACTCTTGTTT
9050647 TTTTTCCACTCTTGTTT
1 TTTTTCCACTCTTGTTT
9050664 TTTTTCCACTCTTGCTTT
1 TTTTTCCACTCTTG-TTT
9050682 TCTTTTC
1 T-TTTTC
9050689 AAGTTCTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
16 14 0.37
17 15 0.39
18 4 0.11
19 5 0.13
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTTCCACTCTTGTTT
Found at i:9057509 original size:186 final size:186
Alignment explanation
Indices: 9057182--9057573 Score: 698
Period size: 186 Copynumber: 2.1 Consensus size: 186
9057172 TTTTCTAATT
* *
9057182 TATATAA-AAATTAAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
9057246 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
* *
9057311 TTTAATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
131 TTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
*
9057367 TATATAATATATTTAATATTTTTTAATTC-AAAAAACTAGTTTATAATTAATTTAAATAATATAT
1 TATATAATATATTTAATATTTTATAATTCAAAAAAAC-AGTTTATAATTAATTTAAATAATATAT
9057431 AATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
65 AATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTT
*
9057496 ATTGGATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
130 ATTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
*
9057553 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
9057574 AAAATTTTAT
Statistics
Matches: 198, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
185 14 0.07
186 184 0.93
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
TTGAATCTTAAATTATTAATTGGATTTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:9061334 original size:2 final size:2
Alignment explanation
Indices: 9061329--9061369 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9061319 ACTACAATAG
9061329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9061370 TTAGAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9062382 original size:36 final size:36
Alignment explanation
Indices: 9062320--9062672 Score: 270
Period size: 36 Copynumber: 9.9 Consensus size: 36
9062310 TTTAAAAAAA
* *
9062320 AAAACATTTTG-AAA-GTATATAATATATGGTTTTT
1 AAAACATTTTGAAAACTTATATAATATATAGTTTTT
*
9062354 AAAACATTTTGAAAACTTATATAATATATAGTTTTG
1 AAAACATTTTGAAAACTTATATAATATATAGTTTTT
* **
9062390 AAATCAACTTGAATATA-TATATATAATATA-A-TTTTT
1 AAAACATTTTGAA-A-ACT-TATATAATATATAGTTTTT
*
9062426 AAAACATTTTTAAAAAACTTATATAATATATAGTTTTT
1 AAAACA-TTTT-GAAAACTTATATAATATATAGTTTTT
* *** ** *
9062464 AAAAAAAATTAAAAAAACTTATATAGCATATAGTTTTA
1 --AAAACATTTTGAAAACTTATATAATATATAGTTTTT
* *
9062502 AAAACATTTTTGAAAAATTATATAATATATAGTTTTA
1 AAAACA-TTTTGAAAACTTATATAATATATAGTTTTT
*
9062539 AAAACATTTTTAAAAACTTATATAATAT-T--TTTTT
1 AAAACA-TTTTGAAAACTTATATAATATATAGTTTTT
* *
9062573 AAATCATTTTTGAAAAC-TATATAATATATAGTTTTG
1 AAAACA-TTTTGAAAACTTATATAATATATAGTTTTT
* * * *
9062609 AAAAC-TTTTTAAAA---ACATAATATTTAGTTTTA
1 AAAACATTTTGAAAACTTATATAATATATAGTTTTT
* *
9062641 AAAATAATTTTG-AAA--TATATATTATATAGTTT
1 AAAA-CATTTTGAAAACTTATATAATATATAGTTT
9062673 ATATTATACT
Statistics
Matches: 260, Mismatches: 40, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
32 19 0.07
33 13 0.05
34 56 0.22
35 3 0.01
36 62 0.24
37 58 0.22
38 42 0.16
39 2 0.01
40 5 0.02
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAACTTATATAATATATAGTTTTT
Found at i:9062448 original size:74 final size:72
Alignment explanation
Indices: 9062335--9062613 Score: 298
Period size: 74 Copynumber: 3.8 Consensus size: 72
9062325 ATTTTGAAAG
* * *
9062335 TATATAATATATGGTTTTTAAAACA-TTTTGAAAACTTATATAATATATAGTTTTGAAATCAACT
1 TATATAATATA--GTTTTTAAAACATTTTTAAAAACTTATATAATATATAGTTTTGAAAACAAAT
* *
9062399 TGAATATA-T
64 T-AAAAAACT
* * *
9062408 ATATATAATATAATTTTTAAAACATTTTTAAAAAACTTATATAATATATAGTTTTTAAAAAAAAT
1 -TATATAATATAGTTTTTAAAACATTTTT-AAAAACTTATATAATATATAGTTTTGAAAACAAAT
9062473 TAAAAAAACT
64 T-AAAAAACT
* * **
9062483 TATATAGCATATAGTTTTAAAAACATTTTTGAAAAA-TTATATAATATATAGTTTTAAAAACATT
1 TATATA--ATATAGTTTTTAAAACATTTTT-AAAAACTTATATAATATATAGTTTTGAAAACAAA
*
9062547 TTTAAAAACT
63 TTAAAAAACT
* * *
9062557 TATATAATAT-TTTTTTAAATCATTTTTGAAAAC-TATATAATATATAGTTTTGAAAAC
1 TATATAATATAGTTTTTAAAACATTTTTAAAAACTTATATAATATATAGTTTTGAAAAC
9062614 TTTTTAAAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 16
0.82 0.10 0.07
Matches are distributed among these distances:
70 27 0.15
71 14 0.08
72 15 0.08
73 4 0.02
74 65 0.37
75 27 0.15
76 25 0.14
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (72 bp):
TATATAATATAGTTTTTAAAACATTTTTAAAAACTTATATAATATATAGTTTTGAAAACAAATTA
AAAAACT
Found at i:9062449 original size:38 final size:38
Alignment explanation
Indices: 9062335--9062623 Score: 289
Period size: 36 Copynumber: 7.9 Consensus size: 38
9062325 ATTTTGAAAG
* *
9062335 TATATAATATATGGTTTTTAAAACA-TTTT-GAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
* * ** * * *
9062371 TATATAATATATAGTTTTGAAATCAACTTGAATATA-T
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
9062408 ATATATAATATA-A-TTTTTAAAACATTTTTAAAAAACT
1 -TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
* ** *
9062445 TATATAATATATAGTTTTTAAAAAAAATTAAAAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
** * *
9062483 TATATAGCATATAGTTTTAAAAACATTTTTGAAAAA-T
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
*
9062520 TATATAATATATAGTTTTAAAAACATTTTT-AAAAACT
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
* *
9062557 TATATAATAT-T--TTTTTAAATCATTTTT-GAAAAC-
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
*
9062590 TATATAATATATAGTTTTGAAAAC-TTTTTAAAAA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAA
9062624 CATAATATTT
Statistics
Matches: 207, Mismatches: 35, Indels: 22
0.78 0.13 0.08
Matches are distributed among these distances:
33 10 0.05
34 20 0.10
35 5 0.02
36 65 0.31
37 46 0.22
38 61 0.29
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (38 bp):
TATATAATATATAGTTTTTAAAACATTTTTAAAAAACT
Found at i:9062501 original size:37 final size:37
Alignment explanation
Indices: 9062335--9062651 Score: 228
Period size: 37 Copynumber: 8.8 Consensus size: 37
9062325 ATTTTGAAAG
* * * *
9062335 TATATAATATATGGTTTTTAAAACATTTT-GAAAACT
1 TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
** * * * *
9062371 TATATAATATATAGTTTTGAAATCAACTTGAATATA-T
1 TATATAATATATAGTTTT-AAAAAAATTTTAAAAAACT
* * *
9062408 ATATATAATATA-ATTTTTAAAACATTTTTAAAAAACT
1 -TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
* *
9062445 TATATAATATATAGTTTTTAAAAAAAATTAAAAAAACT
1 TATATAATATATAG-TTTTAAAAAAATTTTAAAAAACT
** * *
9062483 TATATAGCATATAGTTTTAAAAACATTTTTGAAAAA-T
1 TATATAATATATAGTTTTAAAAA-AATTTTAAAAAACT
* *
9062520 TATATAATATATAGTTTTAAAAACATTTTTAAAAACT
1 TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
* ** **
9062557 TATATAATAT-T--TTTTTAAATCATTTTTGAAAAC-
1 TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
* * *
9062590 TATATAATATATAGTTTT-GAAAACTTTTTAAAAAC-
1 TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
*
9062625 ---ATAATATTTAGTTTTAAAAATAATTTT
1 TATATAATATATAGTTTTAAAAA-AATTTT
9062652 GAAATATATA
Statistics
Matches: 224, Mismatches: 44, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
32 14 0.06
33 13 0.06
34 25 0.11
35 12 0.05
36 53 0.24
37 55 0.25
38 52 0.23
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTAAAAAAATTTTAAAAAACT
Found at i:9062710 original size:14 final size:13
Alignment explanation
Indices: 9062693--9062755 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
9062683 ATTATTAGTA
9062693 TATTATTATTATTT
1 TATT-TTATTATTT
9062707 TATTTTATTTTATTT
1 TATTTTA--TTATTT
9062722 TATTTTATTCATTT
1 TATTTTATT-ATTT
* *
9062736 AATTTTATTTAATT
1 TATTTTA-TTATTT
9062750 TATTTT
1 TATTTT
9062756 TCTGTTCAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 5 0.12
14 22 0.52
15 15 0.36
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:9062715 original size:19 final size:18
Alignment explanation
Indices: 9062693--9062755 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 18
9062683 ATTATTAGTA
9062693 TATTATTATTATTTTA--T
1 TATTATT-TTATTTTATTT
9062710 T-TTATTTTATTTTATTT
1 TATTATTTTATTTTATTT
*
9062727 TATTCATTTAATTTTATTT
1 TATT-ATTTTATTTTATTT
*
9062746 AATTTATTTT
1 TA-TTATTTT
9062756 TCTGTTCAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.21
16 5 0.13
17 3 0.08
18 2 0.05
19 18 0.47
20 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TATTATTTTATTTTATTT
Found at i:9062721 original size:15 final size:14
Alignment explanation
Indices: 9062701--9062755 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
9062691 TATATTATTA
9062701 TTATTTTATTTTATT
1 TTATTTTATTTTA-T
9062716 TTATTTTATTTTAT
1 TTATTTTATTTTAT
* *
9062730 TCATTTAATTTTAT
1 TTATTTTATTTTAT
*
9062744 TTAATTTATTTT
1 TTATTTTATTTT
9062756 TCTGTTCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:9062730 original size:5 final size:5
Alignment explanation
Indices: 9062695--9062755 Score: 72
Period size: 5 Copynumber: 12.4 Consensus size: 5
9062685 TATTAGTATA
* *
9062695 TTATT ATTATT TTATT TTATT TTATT TTATT TTA-T TCATT TAATT TTA-T
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
9062744 TTAAT TTATT TT
1 TTATT TTATT TT
9062756 TCTGTTCAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
4 7 0.14
5 37 0.76
6 5 0.10
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:9063913 original size:8 final size:7
Alignment explanation
Indices: 9063866--9063917 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
9063856 TTTATTTAGC
9063866 ATTTTTT
1 ATTTTTT
9063873 ATTTTTT
1 ATTTTTT
9063880 ATTTTTTT
1 A-TTTTTT
9063888 ATTTTTT
1 ATTTTTT
9063895 -TTATTTT
1 ATT-TTTT
9063902 -TTTTTT
1 ATTTTTT
9063908 CATTTTTT
1 -ATTTTTT
9063916 AT
1 AT
9063918 CTTATTTCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.15
7 22 0.54
8 13 0.32
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:9063948 original size:8 final size:8
Alignment explanation
Indices: 9063867--9063904 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
9063857 TTATTTAGCA
9063867 TTTTTTA-
1 TTTTTTAT
9063874 TTTTTTAT
1 TTTTTTAT
9063882 TTTTTTATT
1 TTTTTTA-T
9063891 TTTTTTAT
1 TTTTTTAT
9063899 TTTTTT
1 TTTTTT
9063905 TTTCATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.24
8 14 0.48
9 8 0.28
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:9063948 original size:9 final size:9
Alignment explanation
Indices: 9063874--9063905 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9063864 GCATTTTTTA
9063874 TTTTTTA-T
1 TTTTTTATT
9063882 TTTTTTATT
1 TTTTTTATT
9063891 TTTTTTATT
1 TTTTTTATT
9063900 TTTTTT
1 TTTTTT
9063906 TTCATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTATT
Found at i:9067744 original size:95 final size:95
Alignment explanation
Indices: 9067566--9067766 Score: 305
Period size: 95 Copynumber: 2.1 Consensus size: 95
9067556 AGGCTATAAT
* *
9067566 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCTGACTTTA
1 ATTATA-ATATACAATAAAGATTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
*
9067631 TGGATAAGATCCAGCTAGCCTAATAAAGGTG
65 TGGATAAGATCCACCTAGCCTAATAAAGGTG
* * *
9067662 ATTTTAATATACAATAAAGATTGA-ATTGTCCCTCTAAAGCAATTGGTTAAATGCCCCGGCTTTA
1 ATTATAATATACAATAAAGATTGAGA-TGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
* *
9067726 TGGATAAGATTCACCTAGCCTCATAAAGGTG
65 TGGATAAGATCCACCTAGCCTAATAAAGGTG
9067757 ATTATAATAT
1 ATTATAATAT
9067767 TGAGCTGTCC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 1 0.01
95 89 0.94
96 5 0.05
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGATTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATCCACCTAGCCTAATAAAGGTG
Found at i:9068820 original size:80 final size:80
Alignment explanation
Indices: 9068609--9069734 Score: 1341
Period size: 80 Copynumber: 14.0 Consensus size: 80
9068599 ACATTCAACA
* * * * *
9068609 AAAGACCTTCGAG-TCTGATTACACTCAGCTCAAAGGAACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTC-GATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* * *
9068673 AGAAGGGTTATCTGTTAAC
65 AGAAAGGCTATCTG---CC
* * *
9068692 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGAACATCATTTGCAGCATAGCTTAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
9068757 GAAAGGCTATCTGCC
66 GAAAGGCTATCTGCC
* * * *
9068772 AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCAAAACATTTGCAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
9068837 -AAAGGTTATTTGCTAAC
66 GAAAGGCTATCTGC---C
* * * *
9068854 AAAAGACCTTCGAGTTCGATTATACTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGGTA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
9068919 ATAAAGGCTATCTGCC
65 AGAAAGGCTATCTGCC
* * *
9068935 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAAGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
9069000 G-AAGGCTATTTGCC
66 GAAAGGCTATCTGCC
* * * * * *
9069014 AAAGACCTTCGAGCTT-GATTCCATTCAGCTCAAAGGAACATCATTTGAAGTATAACTCAAGGCA
1 AAAGACCTTCGAG-TTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
9069078 AG-AAGTGTTATCTGCC
65 AGAAAG-GCTATCTGCC
* * * * * *
9069094 AAAGACCTTCGAGTTCGATTCCATTCAGCTCAAATGTACATCATTTGCAACATAGCTTAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
9069159 GAAAGGCTATCTGCC
66 GAAAGGCTATCTGCC
* * **
9069174 AAATACCTTCGAGTTCGATTACACTCAGATCAAAGGCACATCATTTGCAATATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * *
9069239 G-ATGGTTATTTACCAAC
66 GAAAGGCTATCT-GC--C
* * *
9069256 AAAAGACCTTCGAGTTCTATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTTAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
9069321 AGAAAGGTTATCTGCC
65 AGAAAGGCTATCTGCC
* *
9069337 AAAGTCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
9069402 G-AAGGTTTATCTGCC
66 GAAAGG-CTATCTGCC
* * * *
9069417 AAATACCTTCGAGTTCGATTCCACTTAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
9069482 GAAGGGCTATCTGCC
66 GAAAGGCTATCTGCC
* * ** *
9069497 AAAGACCTTCGAGTTCGATT-CTATTTAGCTCAAAGGCACATCATTTATAGCATAACTCAAGGCA
1 AAAGACCTTCGAGTTCGATTAC-ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
9069561 AGAAGGGCTATCTGCC
65 AGAAAGGCTATCTGCC
* ** * *
9069577 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGTACATCATTTAAAGTATAGCTAAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
9069642 GAAGGGCTATCTGCC
66 GAAAGGCTATCTGCC
* * * ** **
9069657 AAAGACCTTCGAGTTCGAATGCACTCAGCTCAAAAGCACATCATTTATAGCATAGCTCAAGGTGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
9069722 GAAGGGCTATCTG
66 GAAAGGCTATCTG
9069735 TCAATAAAAT
Statistics
Matches: 919, Mismatches: 105, Indels: 41
0.86 0.10 0.04
Matches are distributed among these distances:
79 94 0.10
80 607 0.66
81 9 0.01
82 2 0.00
83 187 0.20
84 20 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAAGGCTATCTGCC
Found at i:9070349 original size:36 final size:34
Alignment explanation
Indices: 9070309--9070726 Score: 233
Period size: 36 Copynumber: 11.8 Consensus size: 34
9070299 GTTTGAAGTT
9070309 ATTTTGAAATTATATAATATATAGTTTTTTTAAAAC
1 ATTTTGAAATTATATAATATATAG--TTTTTAAAAC
* * *
9070345 ATTTTGAAAGTATATAATATATGGTTTTTAAAAT
1 ATTTTGAAATTATATAATATATAGTTTTTAAAAC
* *
9070379 ATTTTGAAAACTTATATAATATATAGTTTTGAAATC
1 ATTTTG-AAA-TTATATAATATATAGTTTTTAAAAC
* * * * * *
9070415 ATCTTGAAAATATATATATATATA-TATATATATAT
1 ATTTTGAAATTATATA-ATATATAGTTTTTA-AAAC
* * * *
9070450 ATATAT-ATATATATCTAACATATAGTTTTTAAAAC
1 AT-TTTGAAAT-TATATAATATATAGTTTTTAAAAC
* *
9070485 ATATTTTAAAAACTTAAATAATATATAGTTTTTAAAAC
1 --ATTTT-GAAA-TTATATAATATATAGTTTTTAAAAC
* * *
9070523 ATTTTAAAAAAACTTATATAACATATAGTTTTGAAAAC
1 ATTTT---GAAA-TTATATAATATATAGTTTTTAAAAC
* *
9070561 ATTTTTGAAAAATTATACAATATATAGTTTTAAAAAC
1 A-TTTTG--AAATTATATAATATATAGTTTTTAAAAC
* *
9070598 ATTTTTAAAAACTTATAT-A-ATAT--TTTTTAAATC
1 A-TTTT-GAAA-TTATATAATATATAGTTTTTAAAAC
* * ***
9070631 ATTTTTGAAAACTATATAATATATAG-TTTTGATTT
1 A-TTTTG-AAATTATATAATATATAGTTTTTAAAAC
* * * *
9070666 TTTTTTAAA--ATATAATATATAGTTTTAAAAATA
1 ATTTTGAAATTATATAATATATAGTTTTTAAAA-C
*
9070699 ATTTTGAAATATATATATTATATAGTTT
1 ATTTTGAAAT-TATATAATATATAGTTT
9070727 ATATTATACT
Statistics
Matches: 296, Mismatches: 57, Indels: 58
0.72 0.14 0.14
Matches are distributed among these distances:
31 13 0.04
32 9 0.03
33 28 0.09
34 32 0.11
35 36 0.12
36 83 0.28
37 35 0.12
38 55 0.19
39 5 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (34 bp):
ATTTTGAAATTATATAATATATAGTTTTTAAAAC
Found at i:9070431 original size:2 final size:2
Alignment explanation
Indices: 9070424--9070463 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9070414 CATCTTGAAA
9070424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9070464 CTAACATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9070586 original size:37 final size:37
Alignment explanation
Indices: 9070318--9070662 Score: 247
Period size: 38 Copynumber: 9.6 Consensus size: 37
9070308 TATTTTGAAA
* *
9070318 TTATATAATATATAGTTTTTTTAAAACA-TTTT-GAAA-
1 TTATATAATATATAG--TTTTGAAAACATTTTTAAAAAC
* * * * *
9070354 GTATATAATATATGGTTTTTAAAATA-TTTTGAAAAC
1 TTATATAATATATAGTTTTGAAAACATTTTTAAAAAC
* * *
9070390 TTATATAATATATAGTTTTGAAATCA-TCTTGAAAA-
1 TTATATAATATATAGTTTTGAAAACATTTTTAAAAAC
* * * * * * *
9070425 -TATAT-ATATATA-TATAT-ATATATATATATATATA-
1 TTATATAATATATAGT-TTTGA-AAACATTTTTAAAAAC
* * *
9070459 TATATCTAACATATAGTTTTTAAAACATATTTTAAAAAC
1 T-TATATAATATATAGTTTTGAAAACAT-TTTTAAAAAC
* * *
9070498 TTAAATAATATATAGTTTTTAAAACATTTTAAAAAAAC
1 TTATATAATATATAGTTTTGAAAACATTTT-TAAAAAC
*
9070536 TTATATAACATATAGTTTTGAAAACATTTTTGAAAAA-
1 TTATATAATATATAGTTTTGAAAACATTTTT-AAAAAC
* *
9070573 TTATACAATATATAGTTTTAAAAACATTTTTAAAAAC
1 TTATATAATATATAGTTTTGAAAACATTTTTAAAAAC
* *
9070610 TTATATAATAT-T--TTTT-AAATCATTTTTGAAAAC
1 TTATATAATATATAGTTTTGAAAACATTTTTAAAAAC
9070643 -TATATAATATATAGTTTTGA
1 TTATATAATATATAGTTTTGA
9070663 TTTTTTTTTA
Statistics
Matches: 247, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
32 12 0.05
33 27 0.11
34 26 0.11
35 7 0.03
36 53 0.21
37 53 0.21
38 68 0.28
39 1 0.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (37 bp):
TTATATAATATATAGTTTTGAAAACATTTTTAAAAAC
Found at i:9070670 original size:67 final size:68
Alignment explanation
Indices: 9070475--9070660 Score: 189
Period size: 75 Copynumber: 2.6 Consensus size: 68
9070465 TAACATATAG
* * *
9070475 TTTTTAAAA-CATATTTTAAAAACTTAAATAATATATAGTTTTTAAAACATTTTAAAAAAACTTA
1 TTTTTAAAATCAT-TTTTGAAAA--TATATAATATATAG-TTTTAAAACATTTT-TAAAAACTTA
9070539 TATAACATA
61 TAT-ACATA
*
9070548 TAGTTTTGAAAA-CATTTTTGAAAAATTATACAATATATAGTTTTAAAAACATTTTTAAAAACTT
1 T--TTTT-AAAATCATTTTTG-AAAA-TATATAATATATAGTTTT-AAAACATTTTTAAAAACTT
9070612 ATATA-ATA
60 ATATACATA
*
9070620 TTTTTTAAATCATTTTTGAAAACTATATAATATATAGTTTT
1 TTTTTAAAATCATTTTTGAAAA-TATATAATATATAGTTTT
9070661 GATTTTTTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
69 24 0.24
70 12 0.12
72 4 0.04
73 2 0.02
74 16 0.16
75 31 0.31
76 11 0.11
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (68 bp):
TTTTTAAAATCATTTTTGAAAATATATAATATATAGTTTTAAAACATTTTTAAAAACTTATATAC
ATA
Found at i:9070778 original size:5 final size:5
Alignment explanation
Indices: 9070749--9070809 Score: 74
Period size: 5 Copynumber: 12.6 Consensus size: 5
9070739 TATTAGTATA
* *
9070749 TTATT ATTA-T TTATT TTATT TTATT TTA-T TCATT TTATT TTAAT TTATT
1 TTATT -TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
9070798 TTATT TT-TT TTA
1 TTATT TTATT TTA
9070810 GTTCATGTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 10 0.21
5 35 0.73
6 3 0.06
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:9070783 original size:19 final size:19
Alignment explanation
Indices: 9070749--9070797 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
9070739 TATTAGTATA
*
9070749 TTATTATTATTTATTTTATT
1 TTATT-TTATTCATTTTATT
9070769 TTATTTTATTCATTTTATT
1 TTATTTTATTCATTTTATT
*
9070788 TTAATTTATT
1 TTATTTTATT
9070798 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTATTCATTTTATT
Found at i:9070787 original size:34 final size:34
Alignment explanation
Indices: 9070749--9070815 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
9070739 TATTAGTATA
9070749 TTATTATT-ATTTATTTTATTTTATTTTA-TTCATT
1 TTATT-TTAATTTATTTTATTTT-TTTTAGTTCATT
9070783 TTATTTTAATTTATTTTATTTTTTTTAGTTCAT
1 TTATTTTAATTTATTTTATTTTTTTTAGTTCAT
9070816 GTCTGAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.73
Consensus pattern (34 bp):
TTATTTTAATTTATTTTATTTTTTTTAGTTCATT
Found at i:9070808 original size:19 final size:19
Alignment explanation
Indices: 9070755--9070809 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
9070745 TATATTATTA
*
9070755 TTATTTATTTTATTTTATT
1 TTATTTATTTTATTTTAAT
*
9070774 TTATTCATTTTATTTTAAT
1 TTATTTATTTTATTTTAAT
9070793 TTATTTTATTTT-TTTTA
1 TTA-TTTATTTTATTTTA
9070810 GTTCATGTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TTATTTATTTTATTTTAAT
Found at i:9071896 original size:5 final size:5
Alignment explanation
Indices: 9071888--9071936 Score: 73
Period size: 5 Copynumber: 9.8 Consensus size: 5
9071878 TTCATATTGC
*
9071888 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTAT- TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
9071937 TCCTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 3 0.08
5 32 0.80
6 5 0.12
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:9071991 original size:10 final size:10
Alignment explanation
Indices: 9071888--9071992 Score: 61
Period size: 10 Copynumber: 10.2 Consensus size: 10
9071878 TTCATATTGC
*
9071888 TTTTATTTTA
1 TTTTATTTTT
*
9071898 TTTTATTTTA
1 TTTTATTTTT
9071908 TTTTATTTTAT
1 TTTTATTTT-T
* *
9071919 TATT-TTTAT
1 TTTTATTTTT
9071928 TTTTATTTTT
1 TTTTATTTTT
**
9071938 CCTT-TTTTT
1 TTTTATTTTT
* *
9071947 ATTCATTTTT
1 TTTTATTTTT
*
9071957 TATCTTATTTCCT
1 T-T-TTATTT-TT
*
9071970 TTTGATTATTT
1 TTTTATT-TTT
9071981 TTTTATTTTT
1 TTTTATTTTT
9071991 TT
1 TT
9071993 AGTAATTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
9 10 0.14
10 38 0.53
11 15 0.21
12 7 0.10
13 2 0.03
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:9071992 original size:11 final size:11
Alignment explanation
Indices: 9071888--9072088 Score: 55
Period size: 12 Copynumber: 17.2 Consensus size: 11
9071878 TTCATATTGC
*
9071888 TTTTA-TTTTA
1 TTTTATTTTTT
9071898 TTTTATTTTATT
1 TTTTATTTT-TT
*
9071910 TTATT-TTATTAT
1 TT-TTATT-TTTT
9071922 TTTTATTTTTAT
1 TTTTATTTTT-T
*
9071934 TTTTCCTTTTTT
1 TTTT-ATTTTTT
*
9071946 TATTCATTTTTT
1 T-TTTATTTTTT
* **
9071958 ATCTTATTTCCT
1 -TTTTATTTTTT
* *
9071970 TTTGATTATTT
1 TTTTATTTTTT
9071981 TTTTATTTTTT
1 TTTTATTTTTT
* *
9071992 TAGTAATTTTTT
1 T-TTTATTTTTT
* *
9072004 TATTTATTGTGT
1 T-TTTATTTTTT
* *
9072016 TCTAATTGTTTT
1 TTTTATT-TTTT
* *
9072028 CTTTGATTTATTA
1 -TTTTATTT-TTT
*
9072041 TTTTAGTTTTT
1 TTTTATTTTTT
*
9072052 ATTTATTTATTT
1 TTTTATTT-TTT
* * *
9072064 ATTTAGTATTT
1 TTTTATTTTTT
*
9072075 ATTTATTATTTT
1 TTTTATT-TTTT
9072087 TT
1 TT
9072089 CTCTAACCTT
Statistics
Matches: 136, Mismatches: 40, Indels: 28
0.67 0.20 0.14
Matches are distributed among these distances:
10 5 0.04
11 44 0.32
12 68 0.50
13 19 0.14
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:9072011 original size:4 final size:4
Alignment explanation
Indices: 9071975--9072085 Score: 52
Period size: 4 Copynumber: 27.5 Consensus size: 4
9071965 TTCCTTTTGA
* * * * * *
9071975 TTAT TTTT TTAT TTTT TTAG TAAT TTTT TTAT TTAT TGTGT TCTAAT TGT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT T-T-AT T-TAT
* * *
9072026 TTCT TTGAT TTA- TTATT TTAG TT-T TTAT TTAT TTAT TTAT TTA- GTAT
1 TTAT TT-AT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
9072073 TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TT
9072086 TTTCTCTAAC
Statistics
Matches: 79, Mismatches: 19, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
3 11 0.14
4 55 0.70
5 10 0.13
6 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:9072049 original size:23 final size:24
Alignment explanation
Indices: 9072030--9072085 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
9072020 ATTGTTTTCT
9072030 TTGATTTA-TTATTTTAGTTTTTA
1 TTGATTTATTTATTTTAGTTTTTA
* *
9072053 TTTATTTATTTA-TTTAGTATTTA
1 TTGATTTATTTATTTTAGTTTTTA
*
9072076 TTTA-TTATTT
1 TTGATTTATTT
9072086 TTTCTCTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 6 0.20
23 21 0.70
24 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (24 bp):
TTGATTTATTTATTTTAGTTTTTA
Found at i:9074193 original size:12 final size:12
Alignment explanation
Indices: 9074176--9074202 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9074166 ACAAGAAGTT
9074176 CAGTAAAAGGAA
1 CAGTAAAAGGAA
9074188 CAGTAAAAGGAA
1 CAGTAAAAGGAA
9074200 CAG
1 CAG
9074203 GACAAGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.11, G:0.26, T:0.07
Consensus pattern (12 bp):
CAGTAAAAGGAA
Found at i:9075312 original size:3 final size:3
Alignment explanation
Indices: 9075284--9075366 Score: 80
Period size: 3 Copynumber: 27.0 Consensus size: 3
9075274 CTCGTTTTTG
* *
9075284 TTA TTA ATA TTA TT- TATA TATG TTA TTA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
9075331 TTA CTTA TTA TTA -TA TTA CTA ATA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9075367 AATAATATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.04
3 55 0.81
4 10 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:9076665 original size:21 final size:22
Alignment explanation
Indices: 9076636--9076678 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9076626 TTATAATTCA
*
9076636 ATCACTTAATTTTAATATTAAT
1 ATCACTTAATATTAATATTAAT
*
9076658 ATCA-TTAATATTACTATTAAT
1 ATCACTTAATATTAATATTAAT
9076679 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
ATCACTTAATATTAATATTAAT
Found at i:9083237 original size:22 final size:22
Alignment explanation
Indices: 9083213--9083283 Score: 124
Period size: 22 Copynumber: 3.2 Consensus size: 22
9083203 ATTCTACAAG
*
9083213 GATGATAGATTCTCTTTTCAAG
1 GATGATAGATTCTCTTTTCAAA
9083235 GATGATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
*
9083257 GATAATAGATTCTCTTTTCAAA
1 GATGATAGATTCTCTTTTCAAA
9083279 GATGA
1 GATGA
9083284 GAGCTTTACC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.39
Consensus pattern (22 bp):
GATGATAGATTCTCTTTTCAAA
Found at i:9083845 original size:20 final size:20
Alignment explanation
Indices: 9083820--9083884 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
9083810 ATCACGAATT
9083820 TGTAAATCCTTCGGATCATC
1 TGTAAATCCTTCGGATCATC
* *
9083840 TGTAAATCCTTCGAGCATGATG
1 TGTAAATCCTTCG-G-ATCATC
* *
9083862 TTTAAATCCTTCGGGTCATC
1 TGTAAATCCTTCGGATCATC
9083882 TGT
1 TGT
9083885 CAGTCTTTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 16 0.44
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTAAATCCTTCGGATCATC
Found at i:9084391 original size:3 final size:3
Alignment explanation
Indices: 9084385--9084453 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
9084375 TTTATATATG
* * * *
9084385 TTA TTA TTA TCA -TA TTA TTA TTA CTA TTA TTAA TTA CATG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -TTA TTA TTA
*
9084431 -TA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
9084454 AATAATATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 3 0.06
3 45 0.87
4 4 0.08
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Done.