Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009238.1 Hibiscus syriacus cultivar Beakdansim tig00112864_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: 1094141
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 3 of 5
Found at i:549214 original size:23 final size:22
Alignment explanation
Indices: 549170--549214 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
549160 AATGTCATGG
*
549170 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
549192 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
549215 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:549985 original size:31 final size:31
Alignment explanation
Indices: 549901--550024 Score: 119
Period size: 31 Copynumber: 4.0 Consensus size: 31
549891 GAGTCGAGGG
* *
549901 TACCTATGTTCTACGGAAAATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* *
549932 TTACCTATG-TCTTTC-GAGACATATGGATAGTA
1 -TACCTATGTTC-TACGGA-ACATATGGACAGTA
*
549964 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
549994 TCACCTAGGTTCTTCGGAACCTATGGACAGT
1 T-ACCTATGTTCTACGGAACATATGGACAGT
550025 TGCCGAGGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
30 1 0.01
31 50 0.66
32 25 0.33
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:550063 original size:30 final size:30
Alignment explanation
Indices: 550012--550083 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
550002 GTTCTTCGGA
* * *
550012 ACCTATGGACAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
550042 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
550072 ACCTCTGGATAG
1 ACCTCTGGATAG
550084 GTCCTGCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:556748 original size:27 final size:26
Alignment explanation
Indices: 556686--556775 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
556676 GTATAAATAC
*
556686 TTAAAAATATTTTTTATATTATCTTA-
1 TTAAAAATATTTTAT-TATTATCTTAT
* * *
556712 TTAGATATATTTTATTATTAACTTAAT
1 TTAAAAATATTTTATTATTATCTT-AT
* *
556739 TTAAAAATATTTTATTTTTATTTTCAT
1 TTAAAAATATTTTATTATTATCTT-AT
556766 TTAAAAATAT
1 TTAAAAATAT
556776 ATATTATGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 8 0.15
26 13 0.25
27 31 0.60
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (26 bp):
TTAAAAATATTTTATTATTATCTTAT
Found at i:557375 original size:24 final size:25
Alignment explanation
Indices: 557333--557393 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
557323 TATATAGATT
* *
557333 TTATTAGTTTAATTTAATATATAAAA
1 TTATTA-TATAATTAAATATATAAAA
* *
557359 TTATTA-ATAATTAAATATGTAATA
1 TTATTATATAATTAAATATATAAAA
557383 TTATTATATAA
1 TTATTATATAA
557394 AAATAAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 20 0.67
25 4 0.13
26 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
TTATTATATAATTAAATATATAAAA
Found at i:560299 original size:31 final size:31
Alignment explanation
Indices: 560264--560324 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
560254 AAAAAATAAT
560264 ATTTGATTA-TTCTAGTTTTTATTTAATTAAG
1 ATTTGATTACTT-TAGTTTTTATTTAATTAAG
*
560295 ATTTGATTACTTTTGTTTTTATTTAATTAA
1 ATTTGATTACTTTAGTTTTTATTTAATTAA
560325 CATATAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (31 bp):
ATTTGATTACTTTAGTTTTTATTTAATTAAG
Found at i:560924 original size:208 final size:209
Alignment explanation
Indices: 560566--560982 Score: 827
Period size: 208 Copynumber: 2.0 Consensus size: 209
560556 ATAACCTCAG
560566 TGACCAAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTGGATTTGCCAAAATGACCAA
1 TGACCAAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTGGATTTGCCAAAATGACCAA
560631 CTAAATCGCAATGCGATCGATAATTCACAACGCGATCTCCGGTATCGCAAATCAGTTTCCAAATT
66 CTAAATCGCAATGCGATCGATAATTCACAACGCGATCTCCGGTATCGCAAATCAGTTTCCAAATT
560696 CGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGTGTTGTGATTTTCCTAA-TCGC
131 CGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGTGTTGTGATTTTCCTAATTCGC
560760 AATGCGAATACGTA
196 AATGCGAATACGTA
560774 TGACCAAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTGGATTTGCCAAAATGACCAA
1 TGACCAAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTGGATTTGCCAAAATGACCAA
560839 CTAAATCGCAATGCGATCGATAATTCACAACGCGATCTCCGGTATCGCAAATCAGTTTCCAAATT
66 CTAAATCGCAATGCGATCGATAATTCACAACGCGATCTCCGGTATCGCAAATCAGTTTCCAAATT
560904 CGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGTGTTGTGATTTTCCTAATTCGC
131 CGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGTGTTGTGATTTTCCTAATTCGC
560969 AATGCGAATACGTA
196 AATGCGAATACGTA
560983 AATCGCAATG
Statistics
Matches: 208, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
208 190 0.91
209 18 0.09
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (209 bp):
TGACCAAAAATGCCTTATAATATACGATTTTAACCAACTTTTTTTGGATTTGCCAAAATGACCAA
CTAAATCGCAATGCGATCGATAATTCACAACGCGATCTCCGGTATCGCAAATCAGTTTCCAAATT
CGCAACGCGATTCTGACTATCGCATTGCGATTTCCCAAATTCGTGTTGTGATTTTCCTAATTCGC
AATGCGAATACGTA
Found at i:560990 original size:20 final size:20
Alignment explanation
Indices: 560965--561069 Score: 167
Period size: 20 Copynumber: 5.2 Consensus size: 20
560955 TTTTCCTAAT
*
560965 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
560985 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
* *
561005 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
561026 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
561046 TCGCAATGCGATTACGT-AA
1 TCGCAATGCGATTACGTAAA
561065 TCGCA
1 TCGCA
561070 TTGCAATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
19 7 0.09
20 54 0.68
21 18 0.23
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:561035 original size:41 final size:40
Alignment explanation
Indices: 560965--561069 Score: 158
Period size: 41 Copynumber: 2.6 Consensus size: 40
560955 TTTTCCTAAT
*
560965 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGAAAATCGCAATGCGATTACGTAAA
*
561005 TCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAA-TACGAAAATCGCAATGCGATTACGTAAA
* *
561046 TCGCAATGCGATTACG-TAATCGCA
1 TCGCAATGCGAATACGAAAATCGCA
561070 TTGCAATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
39 7 0.12
40 15 0.25
41 37 0.63
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
TCGCAATGCGAATACGAAAATCGCAATGCGATTACGTAAA
Found at i:561042 original size:61 final size:59
Alignment explanation
Indices: 560965--561077 Score: 190
Period size: 61 Copynumber: 1.9 Consensus size: 59
560955 TTTTCCTAAT
560965 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGT-AATCGCAATGC-AATTAGGAAAA
* *
561026 TCGCAATGCGATTACGTAAATCGCAATGCGATTACGTAATCGCATTGCAATT
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAATCGCAATGCAATT
561078 TTCCTAATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
59 4 0.08
60 10 0.20
61 36 0.72
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (59 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAATCGCAATGCAATTAGGAAAA
Found at i:561687 original size:21 final size:21
Alignment explanation
Indices: 561626--561718 Score: 106
Period size: 20 Copynumber: 4.6 Consensus size: 21
561616 TTCTAAACTT
* *
561626 AAAATTGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
561646 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
561666 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
561687 AAAATCGCAACG-CG-AAATG
1 AAAATCGCAACGACGAAAATG
561706 AAAATCGCAACGA
1 AAAATCGCAACGA
561719 TATAATCGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 17 0.27
20 29 0.46
21 17 0.27
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:561705 original size:19 final size:19
Alignment explanation
Indices: 561641--561717 Score: 91
Period size: 19 Copynumber: 3.9 Consensus size: 19
561631 TGCAACATGA
*
561641 AAATGAAAATCGCAACACG
1 AAATGAAAATCGCAACGCG
** *
561660 AAAATGACTATCGCAACGAGAG
1 -AAATGAAAATCGCAAC--GCG
561682 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
561701 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
561718 ATATAATCGC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 19 0.40
20 14 0.29
21 14 0.29
22 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:561705 original size:40 final size:41
Alignment explanation
Indices: 561641--561718 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
561631 TGCAACATGA
**
561641 AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
*
561682 AAATGAAAATCGCAACGCG-AAATGAAAATCGCAACGA
1 AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGA
561719 TATAATCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 16 0.47
41 18 0.53
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (41 bp):
AAATGAAAATCGCAACACGAAAATGAAAATCGCAACGAGAG
Found at i:561832 original size:20 final size:19
Alignment explanation
Indices: 561785--561855 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
561775 CTCTCGTTGT
561785 GATTTTCATTT-CGCGTTGC
1 GATTTTCATTTCCGC-TTGC
**
561804 GATAGTCATTTCCGCATTGC
1 GATTTTCATTTCCGC-TTGC
561824 GATTTTCATTCTCTCG-TTGC
1 GATTTTCATT-TC-CGCTTGC
561844 GATTTTCATTTC
1 GATTTTCATTTC
561856 AACCGAAAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.25
20 29 0.66
21 2 0.05
22 2 0.05
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
GATTTTCATTTCCGCTTGC
Found at i:563565 original size:94 final size:93
Alignment explanation
Indices: 563323--563690 Score: 535
Period size: 94 Copynumber: 4.1 Consensus size: 93
563313 TAGATTGCTT
* *
563323 AGTAAATTTATTCGGTTGCTGCC-ATACTGCTAAAC--TGT-TT-ATTAACA-TGTGAAGTT-GT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
563381 ATTTGTCTTTG--TTGTC-TTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
563406 AGTAAATTTATT-GGTTTGCTGCCAATTCTGCTAAACTG-GTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGG-TTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
563469 TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 TATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
563499 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
563564 ATTTGTCTTTGTTTTGTCCTTTGGTTAAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTT-GA
* * * *
563593 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
563658 ATTTGTCTTTGTTTTATCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
563686 AGTAA
1 AGTAA
563691 TGAAATCCAT
Statistics
Matches: 259, Mismatches: 11, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
82 2 0.01
83 20 0.08
84 11 0.04
85 2 0.01
86 2 0.01
87 6 0.02
88 9 0.03
89 13 0.05
91 5 0.02
92 8 0.03
93 41 0.16
94 140 0.54
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:563808 original size:19 final size:19
Alignment explanation
Indices: 563781--563817 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
563771 TCTTTTGGTT
*
563781 GAAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
563800 GAAACGAAAATCGCAACG
1 GAAACGAAAATCGCAACG
563818 AGAGAATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.22, T:0.08
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:563909 original size:33 final size:33
Alignment explanation
Indices: 563866--563959 Score: 145
Period size: 33 Copynumber: 2.9 Consensus size: 33
563856 ACTATAATCG
*
563866 CGTTGCGATTTTCATTCCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
563899 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
563932 CGTTGCGA-TTTCGTTTCGCGTTGCGATT
1 CGTTGCGATTTTCATTTCGCGTTGCGATT
563960 TTCATTCTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
32 18 0.33
33 37 0.67
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:563939 original size:14 final size:14
Alignment explanation
Indices: 563885--563941 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
563875 TTTCATTCCG
563885 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
563899 CGTTGTGATTTTCATTT
1 CGTTGCGA--TTC-TCT
563916 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
563932 CGTTGCGATT
1 CGTTGCGATT
563942 TCGTTTCGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 15 0.44
16 7 0.21
17 7 0.21
19 5 0.15
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:564480 original size:21 final size:21
Alignment explanation
Indices: 564456--564522 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
564446 TCATTCCCCG
564456 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
564477 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
564498 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
564519 AGAG
1 AGAG
564523 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:565892 original size:14 final size:14
Alignment explanation
Indices: 565873--565908 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
565863 ATTGTTTAAT
565873 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
565887 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
565901 TGATTTGT
1 TGATTTGT
565909 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:566031 original size:19 final size:17
Alignment explanation
Indices: 566015--566098 Score: 72
Period size: 14 Copynumber: 5.1 Consensus size: 17
566005 AAAAATGACT
566015 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
566034 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
566048 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
566067 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
566081 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
566098 A
1 A
566099 AATCACAACG
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
14 16 0.30
16 10 0.19
17 12 0.23
19 15 0.28
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:566057 original size:33 final size:33
Alignment explanation
Indices: 566015--566141 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
566005 AAAAATGACT
566015 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
566048 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
566081 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
566114 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
566142 CGAAACTAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:566163 original size:19 final size:19
Alignment explanation
Indices: 566111--566156 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
566101 TCACAACGAC
566111 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
566130 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
566149 AAATTCGC
1 AAAATCGC
566157 GTTGCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:566174 original size:19 final size:19
Alignment explanation
Indices: 566152--566236 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 19
566142 CGAAACTAAA
*
566152 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
566171 TTCGCTTTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
*
566186 -TCTCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
**
566204 TTCGCATTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
*
566223 TTCCGCGTTGCGAT
1 TT-CGCATTGCGAT
566237 AGACATTAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
14 9 0.17
16 3 0.06
17 3 0.06
19 28 0.53
20 10 0.19
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:566235 original size:20 final size:19
Alignment explanation
Indices: 566189--566243 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
566179 GCGATTCTCT
**
566189 CATTGCGATTTTCATTTCG
1 CATTGCGATAGTCATTTCG
566208 CATTGCGATAGTCATTTCCG
1 CATTGCGATAGTCATTT-CG
* *
566228 CGTTGCGATAGACATT
1 CATTGCGATAGTCATT
566244 AAGATGATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (19 bp):
CATTGCGATAGTCATTTCG
Found at i:569686 original size:20 final size:20
Alignment explanation
Indices: 569663--569715 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
569653 CGATAGTCAG
*
569663 AATCTCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
569683 AATCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
569703 ATTCGCATTGCGA
1 AATCGCATTGCGA
569716 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:569736 original size:21 final size:21
Alignment explanation
Indices: 569712--569757 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
569702 TATTCGCATT
569712 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
569733 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
569754 GCGA
1 GCGA
569758 TAGTTAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:571672 original size:156 final size:156
Alignment explanation
Indices: 571388--571679 Score: 557
Period size: 156 Copynumber: 1.9 Consensus size: 156
571378 ACACACACCA
571388 ATGCTCCACATATATGAATATATCATTGCAAACTGATTGTTTAATATCATACAAAAGAGATGGTG
1 ATGCTCCACATATATGAATATATCATTGCAAACTGATTGTTTAATATCATACAAAAGAGATGGTG
*
571453 AGATCTTTACAGGGCGAGTTTTGCGACTGACAGCAACATTGATGAAGAAAGAACTGATCAATGAC
66 AGATCTTTACAGGGCGAGTTTTGCGACTGACAGCAACATTGATGAAGAAAAAACTGATCAATGAC
571518 AACAAACACACATACCCTACATGCAC
131 AACAAACACACATACCCTACATGCAC
571544 ATGCTCCACATATATGAATATATCATTGCAAACTGATTGTTTAATATCATACAAAAGAGATGGTG
1 ATGCTCCACATATATGAATATATCATTGCAAACTGATTGTTTAATATCATACAAAAGAGATGGTG
* *
571609 AGATCTTTACAGGGCGAGTTTTGCGACTGAGAGCAACGTTGATGAAGAAAAAACTGATCAATGAC
66 AGATCTTTACAGGGCGAGTTTTGCGACTGACAGCAACATTGATGAAGAAAAAACTGATCAATGAC
571674 AACAAA
131 AACAAA
571680 TAACCAGCCC
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 133 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (156 bp):
ATGCTCCACATATATGAATATATCATTGCAAACTGATTGTTTAATATCATACAAAAGAGATGGTG
AGATCTTTACAGGGCGAGTTTTGCGACTGACAGCAACATTGATGAAGAAAAAACTGATCAATGAC
AACAAACACACATACCCTACATGCAC
Found at i:572432 original size:22 final size:22
Alignment explanation
Indices: 572407--572451 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
572397 TAATTGTAAA
* *
572407 TAATAAATATACATACTATAAT
1 TAATAAATAAAAATACTATAAT
* *
572429 TAATATATAAAAATATTATAAT
1 TAATAAATAAAAATACTATAAT
572451 T
1 T
572452 TAAATTCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAAATAAAAATACTATAAT
Found at i:577428 original size:15 final size:16
Alignment explanation
Indices: 577381--577430 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 16
577371 TTTTAATATA
577381 TATATATATATATATTTT
1 TATA-ATATA-ATATTTT
*
577399 TATAATAT--TACTTT
1 TATAATATAATATTTT
577413 TA-AATATAATATTTT
1 TATAATATAATATTTT
577428 TAT
1 TAT
577431 CAGTAGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 5 0.19
14 7 0.26
15 7 0.26
17 4 0.15
18 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATAATATAATATTTT
Found at i:577688 original size:22 final size:22
Alignment explanation
Indices: 577642--577687 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
577632 ACTTAATGCG
577642 TTTAGTACCTAAACTATCAGTT
1 TTTAGTACCTAAACTATCAGTT
* *
577664 TTTA-TACCTAAACTTTCATTT
1 TTTAGTACCTAAACTATCAGTT
577685 TTT
1 TTT
577688 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTAGTACCTAAACTATCAGTT
Found at i:578374 original size:21 final size:21
Alignment explanation
Indices: 578327--578374 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
578317 AAGTGTTAAC
*
578327 AATTTTAAAATAATAATGTTT
1 AATTTAAAAATAATAATGTTT
* *
578348 ATTTTAAAAATAGTATAT-TTT
1 AATTTAAAAATAATA-ATGTTT
578369 AATTTA
1 AATTTA
578375 TGAACACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
AATTTAAAAATAATAATGTTT
Found at i:578663 original size:17 final size:18
Alignment explanation
Indices: 578643--578681 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
578633 GTTTAATATT
578643 AATTTA-TTT-AAATATAA
1 AATTTATTTTGAAA-ATAA
578660 AATTTATTTTGAAAATAA
1 AATTTATTTTGAAAATAA
578678 AATT
1 AATT
578682 GGACATAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 11 0.55
19 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AATTTATTTTGAAAATAA
Found at i:579034 original size:13 final size:13
Alignment explanation
Indices: 579007--579051 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
578997 GTTCCAGTAG
**
579007 CTGATTTGACCAA
1 CTGATTTGATTAA
*
579020 CTGGTTTGATTAA
1 CTGATTTGATTAA
579033 CTGATTTGATTAA
1 CTGATTTGATTAA
579046 CT-ATTT
1 CTGATTT
579052 ATACAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 4 0.14
13 24 0.86
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (13 bp):
CTGATTTGATTAA
Found at i:583367 original size:3 final size:3
Alignment explanation
Indices: 583359--583399 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
583349 AAAAGACTCC
583359 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
583400 GTTTATTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:587774 original size:14 final size:14
Alignment explanation
Indices: 587742--587768 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
587732 GTGTTTGGGT
587742 TTAAGTGTTATGTA
1 TTAAGTGTTATGTA
587756 TTAAGTGTTATGT
1 TTAAGTGTTATGT
587769 TGTAAGCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (14 bp):
TTAAGTGTTATGTA
Found at i:590294 original size:21 final size:21
Alignment explanation
Indices: 590269--590310 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
590259 ATCCAGCCCT
590269 TAGTCAACTAATTCAAATTAG
1 TAGTCAACTAATTCAAATTAG
590290 TAGTCAACTAATTCAAATTAG
1 TAGTCAACTAATTCAAATTAG
590311 GTAATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (21 bp):
TAGTCAACTAATTCAAATTAG
Found at i:590438 original size:29 final size:32
Alignment explanation
Indices: 590406--590474 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 32
590396 TATACCACAA
590406 AACTTTCAA-TTTTA-TT-AATTATAACACT-G
1 AACTTT-AATTTTTATTTCAATTATAACACTAG
*
590435 AACTTTAATTTTTATTTCAATTATACCACTAG
1 AACTTTAATTTTTATTTCAATTATAACACTAG
*
590467 AACATTAA
1 AACTTTAA
590475 AATGTTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 2 0.06
29 11 0.32
30 2 0.06
31 11 0.32
32 8 0.24
ACGTcount: A:0.39, C:0.14, G:0.03, T:0.43
Consensus pattern (32 bp):
AACTTTAATTTTTATTTCAATTATAACACTAG
Found at i:597910 original size:3 final size:3
Alignment explanation
Indices: 597902--597934 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
597892 AATGTGCAGA
597902 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
597935 AATGATAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:601040 original size:13 final size:13
Alignment explanation
Indices: 601022--601046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
601012 TTAATATCAA
601022 TTTTTTATTTAAT
1 TTTTTTATTTAAT
601035 TTTTTTATTTAA
1 TTTTTTATTTAA
601047 AATTAGGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATTTAAT
Found at i:601695 original size:2 final size:2
Alignment explanation
Indices: 601690--601719 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
601680 TATTTAAAAA
601690 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
601720 TTGGCTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:602548 original size:46 final size:46
Alignment explanation
Indices: 602476--602567 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
602466 ATAAATATTT
* *
602476 CTGATATTAACATTTTCAGTAAAAAAAATAGCATTTTAAGTAGCGC
1 CTGATATTAACATTTCCAGTAAAAAAAATAACATTTTAAGTAGCGC
* * *
602522 CTGATATTAATATTTCCAGTAGAAAAAATAACATTTTAGGTAGCGC
1 CTGATATTAACATTTCCAGTAAAAAAAATAACATTTTAAGTAGCGC
602568 TCTACCGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (46 bp):
CTGATATTAACATTTCCAGTAAAAAAAATAACATTTTAAGTAGCGC
Found at i:611232 original size:19 final size:20
Alignment explanation
Indices: 611208--611256 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
611198 GACTCGACCC
611208 AAAATAATATATTTA-TTAA
1 AAAATAATATATTTATTTAA
* *
611227 AAAATATTATTTTTATTTAA
1 AAAATAATATATTTATTTAA
*
611247 TAAA-AATATA
1 AAAATAATATA
611257 GATTTAATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATAATATATTTATTTAA
Found at i:611261 original size:23 final size:23
Alignment explanation
Indices: 611217--611261 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
611207 CAAAATAATA
* *
611217 TATTTATTAAAAAATATTATTTT
1 TATTTAATAAAAAATATGATTTT
611240 TATTTAAT-AAAAATATAGATTT
1 TATTTAATAAAAAATAT-GATTT
611262 AATTGGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTAATAAAAAATATGATTTT
Found at i:612540 original size:15 final size:15
Alignment explanation
Indices: 612520--612550 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
612510 TTATTATAAA
612520 ATCACGTTAAAATTT
1 ATCACGTTAAAATTT
612535 ATCACGTTAAAATTT
1 ATCACGTTAAAATTT
612550 A
1 A
612551 ACAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
ATCACGTTAAAATTT
Found at i:613601 original size:15 final size:15
Alignment explanation
Indices: 613565--613612 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
613555 TGAATCATAA
*
613565 TTAATATATTTTATT
1 TTAATATATTATATT
613580 TTAA-ATATATATATAT
1 TTAATATAT-TATAT-T
613596 TTAATATATTAT-TT
1 TTAATATATTATATT
613610 TTA
1 TTA
613613 TTAAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.28
15 9 0.31
16 8 0.28
17 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATATATTATATT
Found at i:614126 original size:3 final size:3
Alignment explanation
Indices: 614118--614147 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
614108 CCCCTAAAAT
614118 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
614148 TTTTTAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:616731 original size:3 final size:3
Alignment explanation
Indices: 616723--616758 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
616713 GATATCCCTC
616723 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
616759 CCACTTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:618249 original size:29 final size:29
Alignment explanation
Indices: 618206--618288 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
618196 CTCACCTAAC
618206 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
618236 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
618265 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
618289 ATTTAGTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:620535 original size:15 final size:15
Alignment explanation
Indices: 620515--620544 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
620505 CTTTCTCATA
620515 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
620530 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
620545 CCAGCCTCGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:621877 original size:29 final size:29
Alignment explanation
Indices: 621834--621916 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
621824 CTCACCTAAC
621834 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
621864 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
621893 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
621917 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:623382 original size:19 final size:19
Alignment explanation
Indices: 623346--623383 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
623336 GACAAGAGAA
*
623346 TAATTATTTTATTTTATTT
1 TAATTATTTTATTATATTT
623365 TAATTATTTT-TTAATATTT
1 TAATTATTTTATT-ATATTT
623384 ATATTAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TAATTATTTTATTATATTT
Found at i:625703 original size:35 final size:35
Alignment explanation
Indices: 625664--625731 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
625654 CCCACCTAGA
* ** *
625664 ATATTTTCAAAATATTATTTTATATGTTAATTAAT
1 ATATTTACAAAATACCATTATATATGTTAATTAAT
625699 ATATTTACAAAATACCATTATATATGTTAATTA
1 ATATTTACAAAATACCATTATATATGTTAATTA
625732 GGATGCACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (35 bp):
ATATTTACAAAATACCATTATATATGTTAATTAAT
Found at i:626441 original size:27 final size:25
Alignment explanation
Indices: 626409--626459 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
626399 GGTGTGTATA
626409 ATTATCTAAAATGTATTATAAATAAAT
1 ATTATCTAAAAT-TATT-TAAATAAAT
*
626436 ATTATCTTAAATTATTTAAATAAA
1 ATTATCTAAAATTATTTAAATAAA
626460 ATGAGATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 4 0.17
27 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATCTAAAATTATTTAAATAAAT
Found at i:626686 original size:10 final size:10
Alignment explanation
Indices: 626671--626703 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
626661 CTAAAAATTG
626671 AAATAAAAAC
1 AAATAAAAAC
626681 AAATAAAGAA-
1 AAATAAA-AAC
626691 AAATAAAAAC
1 AAATAAAAAC
626701 AAA
1 AAA
626704 CAGACAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (10 bp):
AAATAAAAAC
Found at i:635986 original size:36 final size:36
Alignment explanation
Indices: 635946--636018 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
635936 TCTTTATTAT
*
635946 AAAATTTTATTTGTCCCCTTAAAGTTTATAAGTTTA
1 AAAATTTTATTTGTCCCCTTAAAATTTATAAGTTTA
635982 AAAATTTTATTTGTCCCCTTAAAATTTATAAGTTTA
1 AAAATTTTATTTGTCCCCTTAAAATTTATAAGTTTA
636018 A
1 A
636019 GTTCGTTCTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (36 bp):
AAAATTTTATTTGTCCCCTTAAAATTTATAAGTTTA
Found at i:641155 original size:16 final size:15
Alignment explanation
Indices: 641115--641157 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
641105 ATAAAATATT
641115 TAATTAAAATAATAAA
1 TAATT-AAATAATAAA
*
641131 AAATTAAATAATACAA
1 TAATTAAATAATA-AA
641147 TAATTAAATAA
1 TAATTAAATAA
641158 AATACTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATTAAATAATAAA
Found at i:641185 original size:17 final size:18
Alignment explanation
Indices: 641157--641190 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
641147 TAATTAAATA
641157 AAATACTAACAAAATATT
1 AAATACTAACAAAATATT
641175 AAATA-TAACAAAATAT
1 AAATACTAACAAAATAT
641191 ACCTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATACTAACAAAATATT
Found at i:642405 original size:15 final size:16
Alignment explanation
Indices: 642369--642406 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
642359 AGAGTCTCTG
*
642369 AATCATTCAGTATTTA
1 AATCATTCAGTACTTA
*
642385 AATCATTCAGTGCTT-
1 AATCATTCAGTACTTA
642400 AATCATT
1 AATCATT
642407 ATGAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (16 bp):
AATCATTCAGTACTTA
Found at i:643216 original size:13 final size:13
Alignment explanation
Indices: 643198--643222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
643188 GTAGGATAAT
643198 TCATCTATTTATG
1 TCATCTATTTATG
643211 TCATCTATTTAT
1 TCATCTATTTAT
643223 TTATTTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (13 bp):
TCATCTATTTATG
Found at i:644717 original size:24 final size:23
Alignment explanation
Indices: 644673--644721 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
644663 TTTATTAGTT
*
644673 TAATTTAATATATAAATTTATTAA
1 TAATTAAATATATAAATTTA-TAA
*
644697 TAATTAAATATGT-AATATTATAA
1 TAATTAAATATATAAAT-TTATAA
644720 TA
1 TA
644722 TATAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATTAAATATATAAATTTATAA
Found at i:648786 original size:17 final size:17
Alignment explanation
Indices: 648764--648805 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
648754 AATTAATAAT
648764 TTATATCTAAATAGATG
1 TTATATCTAAATAGATG
648781 TTATATCTAAATAGATG
1 TTATATCTAAATAGATG
648798 TTATATCT
1 TTATATCT
648806 TAATTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (17 bp):
TTATATCTAAATAGATG
Found at i:651286 original size:10 final size:10
Alignment explanation
Indices: 651270--651326 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
651260 AGAAAAGAAA
*
651270 AAAATAAATT
1 AAAATAAAAT
*
651280 GAAAT-AAAT
1 AAAATAAAAT
* *
651289 TAAATGA-AT
1 AAAATAAAAT
651298 AAAATAAAAT
1 AAAATAAAAT
651308 AAAATAAAAT
1 AAAATAAAAT
651318 AAAATAAAA
1 AAAATAAAA
651327 ATAATATACT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
9 14 0.35
10 26 0.65
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:651303 original size:5 final size:5
Alignment explanation
Indices: 651295--651326 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
651285 AAATTAAATG
651295 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
651327 ATAATATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:651339 original size:14 final size:14
Alignment explanation
Indices: 651322--651348 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
651312 TAAAATAAAA
651322 TAAAAATAATATAC
1 TAAAAATAATATAC
651336 TAAAAATAATATA
1 TAAAAATAATATA
651349 TATATATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAATAATATAC
Found at i:651341 original size:20 final size:22
Alignment explanation
Indices: 651318--651363 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
651308 AAAATAAAAT
651318 AAAATAA-AAATA-ATATACTA
1 AAAATAATAAATATATATACTA
* *
651338 AAAATAATATATATATATATTA
1 AAAATAATAAATATATATACTA
651360 AAAA
1 AAAA
651364 ACATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAATAATAAATATATATACTA
Found at i:651419 original size:13 final size:13
Alignment explanation
Indices: 651403--651438 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
651393 TTTTAAAAAA
651403 GTTTTCAAAAATG
1 GTTTTCAAAAATG
651416 GTTTTCAAAAATG
1 GTTTTCAAAAATG
*
651429 ATTTT-AAAAA
1 GTTTTCAAAAA
651439 GTATTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (13 bp):
GTTTTCAAAAATG
Found at i:651437 original size:12 final size:12
Alignment explanation
Indices: 651392--651438 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
651382 TATATTATAC
* *
651392 TTTTTAAAAAAG
1 TTTTCAAAAATG
651404 TTTTCAAAAATGG
1 TTTTCAAAAAT-G
651417 TTTTCAAAAATG
1 TTTTCAAAAATG
651429 ATTTT-AAAAA
1 -TTTTCAAAAA
651439 GTATTATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 15 0.48
13 16 0.52
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (12 bp):
TTTTCAAAAATG
Found at i:651482 original size:35 final size:34
Alignment explanation
Indices: 651416--651482 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
651406 TTCAAAAATG
**
651416 GTTTTCAAAAATGATTTTAAAAAGTATTATATGT
1 GTTTTCAAAAATGATTTTAAAAACCATTATATGT
*
651450 GTTTTCGAAAAATGATTTTTTAAAACCA-TATAT
1 GTTTTC-AAAAATGA-TTTTAAAAACCATTATAT
651483 TATATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 13 0.46
36 9 0.32
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.43
Consensus pattern (34 bp):
GTTTTCAAAAATGATTTTAAAAACCATTATATGT
Found at i:651487 original size:40 final size:39
Alignment explanation
Indices: 651416--651685 Score: 218
Period size: 40 Copynumber: 7.3 Consensus size: 39
651406 TTCAAAAATG
* *
651416 GTTTTCAAAAATGA--TTTTAAAA--A-GTATTATATGT
1 GTTTTCAAAAATGATTTTTTAAAACTATATATTATATAT
*
651450 GTTTTCGAAAAATGATTTTTTAAAACCATATATTATATAAT
1 GTTTTC-AAAAATGATTTTTTAAAACTATATATTATAT-AT
* * *
651491 TTTTTCAAAAAGGTTTTTTTTAAAA-T-TATA-TA-ATA-
1 GTTTTCAAAAATG-ATTTTTTAAAACTATATATTATATAT
651526 --TTTCAAAAA--ATGTTTTTAAAACTATATATTATATAGT
1 GTTTTCAAAAATGAT-TTTTTAAAACTATATATTATATA-T
* * *
651563 TTTTTCAGAAA-GATTTTTTAAAAACTATATATTATATAA
1 GTTTTCAAAAATGATTTTTT-AAAACTATATATTATATAT
* *
651602 GTTTTCCAAAATGA-TTTTAAAAACTATATATTATATA-
1 GTTTTCAAAAATGATTTTTTAAAACTATATATTATATAT
* * * *
651639 ATTTTCAAAAATG--TTTTAAAAACTATATAATATAAAT
1 GTTTTCAAAAATGATTTTTTAAAACTATATATTATATAT
651676 GTTTTCAAAA
1 GTTTTCAAAA
651686 CTATATACTA
Statistics
Matches: 197, Mismatches: 18, Indels: 39
0.78 0.07 0.15
Matches are distributed among these distances:
30 1 0.01
31 9 0.05
32 1 0.01
33 13 0.07
34 8 0.04
35 11 0.06
36 22 0.11
37 30 0.15
38 20 0.10
39 30 0.15
40 36 0.18
41 16 0.08
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (39 bp):
GTTTTCAAAAATGATTTTTTAAAACTATATATTATATAT
Found at i:651648 original size:36 final size:35
Alignment explanation
Indices: 651515--651772 Score: 194
Period size: 36 Copynumber: 7.2 Consensus size: 35
651505 TTTTTTTAAA
*
651515 ATTATATAATATTTCAAAAAATGTTTTTAAAACTATAT
1 ATTATATAAT-TTTC--AAAATGTTTTAAAAACTATAT
* *
651553 ATTATATAGTTTTTTCAGAAAGATTTTTTAAAAACTATAT
1 ATTATATA--ATTTTC--AAA-ATGTTTTAAAAACTATAT
651593 ATTATATAAGTTTTCCAAAATGATTTTAAAAACTATAT
1 ATTATATAA-TTTT-CAAAATG-TTTTAAAAACTATAT
651631 ATTATATAATTTTCAAAAATGTTTTAAAAAC--TAT
1 ATTATATAATTTTC-AAAATGTTTTAAAAACTATAT
*
651665 A-TA-AT-A---T--AAATGTTTTCAAAACTATAT
1 ATTATATAATTTTCAAAATGTTTTAAAAACTATAT
* * * *
651692 ACTATATATATTTTAAAAATGTTTTCAAAATTATAT
1 ATTATATA-ATTTTCAAAATGTTTTAAAAACTATAT
* **
651728 ATAATATATATTTTCAAAAACTGTTTTTTTAAACTATAT
1 ATTATATA-ATTTTC-AAAA-TG-TTTTAAAAACTATAT
651767 ATTATA
1 ATTATA
651773 CCTTGTCAAA
Statistics
Matches: 184, Mismatches: 15, Indels: 41
0.77 0.06 0.17
Matches are distributed among these distances:
25 14 0.08
27 4 0.02
28 3 0.02
29 2 0.01
31 2 0.01
32 2 0.01
33 2 0.01
34 5 0.03
36 42 0.23
37 16 0.09
38 37 0.20
39 29 0.16
40 26 0.14
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (35 bp):
ATTATATAATTTTCAAAATGTTTTAAAAACTATAT
Found at i:651675 original size:25 final size:25
Alignment explanation
Indices: 651647--651710 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
651637 TAATTTTCAA
651647 AAATGTTTTAAAAACTATATAATAT
1 AAATGTTTTAAAAACTATATAATAT
* *
651672 AAATGTTTTCAAAACTATATACTAT
1 AAATGTTTTAAAAACTATATAATAT
* *
651697 ATATATTTTAAAAA
1 AAATGTTTTAAAAA
651711 TGTTTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (25 bp):
AAATGTTTTAAAAACTATATAATAT
Found at i:651686 original size:61 final size:61
Alignment explanation
Indices: 651610--651746 Score: 179
Period size: 61 Copynumber: 2.2 Consensus size: 61
651600 AAGTTTTCCA
* *
651610 AAATGATTTTAAAAACTATATATTATATA-ATTTTCAAAAATGTTTTAAAAACTATATA-ATAT
1 AAATG-TTTTCAAAACTATATACTATATATATTTT-AAAAATGTTTTAAAAACTATATATA-AT
* *
651672 AAATGTTTTCAAAACTATATACTATATATATTTTAAAAATGTTTTCAAAATTATATATAAT
1 AAATGTTTTCAAAACTATATACTATATATATTTTAAAAATGTTTTAAAAACTATATATAAT
* *
651733 ATATATTTTCAAAA
1 AAATGTTTTCAAAA
651747 ACTGTTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
61 56 0.84
62 11 0.16
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AAATGTTTTCAAAACTATATACTATATATATTTTAAAAATGTTTTAAAAACTATATATAAT
Found at i:651801 original size:2 final size:2
Alignment explanation
Indices: 651788--651825 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
651778 TCAAAAAAAC
*
651788 TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
651826 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:652676 original size:165 final size:165
Alignment explanation
Indices: 652404--653488 Score: 1085
Period size: 165 Copynumber: 6.6 Consensus size: 165
652394 GACAATTTTA
* * * *
652404 TTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTG-CTCTCGAAGCTGAGTATA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCT-TCGAAGCTGAGTGTA
* * ** *
652468 ATCGAACTCGGGGGTCTTTGGCAGATAACTATTCTCGACTTAAGCTATGTTGCAAATGATGTGCC
65 ATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
652533 TTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGG
130 TTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * *
652569 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCTTCGAAGTTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
* ** *
652634 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTATAAATGATGTGTCT
66 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * *
652699 TGCAGCTGAGCGTAGTCGAACTCGAAGGTATTTGG
131 TGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * *
652734 TTGGCAGATAAACCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
* * * *
652799 TCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTGTACCT
66 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * *
652864 TTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
131 TGGAACTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
* * * * **
652900 -TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGACGTGCCCTCGAAATTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
* * * * *
652964 TCAAACTCGAGAGTTTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTACAAATGATGTGCCT
66 TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
*
653029 T-GAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGG
131 TGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * *
653064 TT-AGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTT-GGAGCTGAGCGTA
1 TTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTA
* * * * * * * * * *
653127 GTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATA
65 ATCGAACTCGAGGGTC-TTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * * *
653192 TGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTT-G
126 TGCCTTGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * * * **
653232 --G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTT-GGAGCTGAG-CAAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
* * * * * * *
653292 GTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGATTTAAGTTATGCTGCAAATGATA
66 -TCGAACTCGAGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
** * * *
653357 TGCCTTGGAGTTGAACGTAGTAGAACTCGAAGGTCTTTTG
126 TGCCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* * * * * ** * ** *
653397 TTGGCAAATAGCCCTTCTTGCCTTGAGCTATATTGTAAATGATGCACCCTCGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
* *
653462 TCAAACTCGAGGGTCTTTGGCATATAG
66 TCGAACTCGAGGGTCTTTGGCAGATAG
653489 TATACCATCC
Statistics
Matches: 773, Mismatches: 126, Indels: 42
0.82 0.13 0.04
Matches are distributed among these distances:
164 50 0.06
165 581 0.75
166 11 0.01
167 4 0.01
168 76 0.10
169 49 0.06
170 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (165 bp):
TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTCGAAGCTGAGTGTAA
TCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
TGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:652823 original size:330 final size:329
Alignment explanation
Indices: 652415--653483 Score: 1205
Period size: 330 Copynumber: 3.2 Consensus size: 329
652405 TGACAGATAG
* * **
652415 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCTCTCGAAGCTGAGTATAATCGAACTCGGG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAA
** *
652480 GGTCTTTGGCAGATAACTATTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTGGAACTGAGC
66 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTCGAACTGAGC
*
652545 GTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATG
131 GTAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * * *
652610 ATATGCCTTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
195 ATGTGCCTTCGAAGTTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTA
* * * * *
652675 AGCTATGCTATAAATGATGTGTCTTGCAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCA
260 AGCTATGCTACAAATGATGTGCCTTGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
*
652740 GATAA
325 AATAA
* * * *
652745 ACCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAA
* * * * * *
652810 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTGTACCTTTGAGCTGAGC
66 GGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTCGAACTGAGC
* * *
652875 GTAGTCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATG
131 GTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATG
* * * * * *
652940 ACGTGCCCTCGAAATTGAGTGTAATCAAACTCGAGAGTTTTTGGCAGATAGCCCTTCTTGACTTA
195 ATGTGCCTTCGAAGTTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTA
*
653005 AGCTATGCTACAAATGATGTGCCTTGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTAGCA
260 AGCTATGCTACAAATGATGTGCCTTGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
*
653070 TATAA
325 AATAA
* * * * * * * * *
653075 CCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAA
* * * * * * *
653139 GGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGC
66 GGTC-TTT-G-G-CAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTCGAA-C
* * * * * * * * *
653204 TGAGTGTAATCGAACTTGAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
126 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCA
* * * ** * *
653266 AATGATGTACCTT-GGAGCTGAG-CAAAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
191 AATGATGTGCCTTCGAAGTTGAGTGTAA-TCAAACTCGAGGGTC--T--TTGGCAGATAGCCCTT
* * * * * * *
653329 CTAGATTTAAGTTATGCTGCAAATGATATGCCTTGGAGTTGAACGTAGTAGAACTCGAAGGTCTT
251 CTAGACTTAAGCTATGCTACAAATGATGTGCCTTGAAGCTGAACGTAGTCGAACTCGAAGGTCTT
* *
653394 TTGTTGGCAAATAG
316 TGGTTGGCAAATAA
** * ** * *
653408 CCCTTCTTGCCTTGAGCTATATTGTAAATGATGCACCCTCGAAGCTGAGTGTAATCAAACTCGAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAA
653473 GGTCTTTGGCA
66 GGTCTTTGGCA
653484 TATAGTATAC
Statistics
Matches: 616, Mismatches: 111, Indels: 24
0.82 0.15 0.03
Matches are distributed among these distances:
328 2 0.00
329 46 0.07
330 359 0.58
331 9 0.01
332 3 0.00
333 150 0.24
334 47 0.08
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (329 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAA
GGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGCCTTCGAACTGAGC
GTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
TGTGCCTTCGAAGTTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAA
GCTATGCTACAAATGATGTGCCTTGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTGGCAA
ATAA
Found at i:652916 original size:249 final size:248
Alignment explanation
Indices: 652405--653488 Score: 1118
Period size: 249 Copynumber: 4.4 Consensus size: 248
652395 ACAATTTTAT
* * * * * * *
652405 TGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCTCTCGAAGCTGAGTATAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * * ** * *
652470 CGAACTCGGGGGTCTTTGGCAGATAACTATTCTCGACTTAAGCTATGTTGCAAATGATGTG-CCT
66 CGAACTCGAGGATTTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCT
* * *
652534 TGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCTAGCCTTGAGTT
131 T-GAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-TG-CAGATAACCCTTCTAGACTTAAGTT
* * * * * * **
652598 ATGCTACAAATGATATGCCTTCGAAGTTGAGTGTAATCGAACTCGGGGGTC-TTT-G
193 ATGCTGCAAATGATATGCCTT-GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
* * * * * * * * * * * *
652653 -G-CAGATAGCCCTTCTCGACTTAAGCTATGCTATAAATGATGTG-TCTTGCAGCTGAGCGTAGT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
** * * *
652715 CGAACTCGAAGGTATTTGGTTGGCAGATAAACCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
66 CGAACTCG-AGG-ATTT--TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG
* * * * * *
652780 CCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTT-G-GCAGATAGCCCTTCTCGACTTAAGC
127 CCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGT
* * * *
652843 TATGCTGCAAATGTTGTACCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
192 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
* **
652900 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGACGTGCCCTCGAAATTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * *
652965 CAAACTCGA-GAGTTTTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTACAAATGATGTG-CC
66 CGAACTCGAGGA-TTTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCC
* * * *
653028 TTGAAGCTGAACGTAGTCGAACTCGAAGGTCTTTGGTTAGCATATAACCCTTCTCGACTTAAGTT
130 TTGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCTAGACTTAAGTT
*
653093 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
193 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
* *
653149 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
* * * * *
653214 CGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT-ACCT
66 CGAACTCGAGGATTTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCT
* * * *
653278 TGGAGCTGAGC-AAAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGATTTAAGTT
131 TGAAGCTGAGCGTAA-TCGAACTCGAAGGTCTTTGG-T-GCAGATAACCCTTCTAGACTTAAGTT
* * *
653342 ATGCTGCAAATGATATGCCTTGGAGTTGAACGTAGT-AGAACTCGAAGGTCTTTTGT
193 ATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCA-AACTCGAAGGTCTTTTGG
* * * * * **
653398 TGGCAAATAGCCCTTCTTGCCTTGAGCTAT-ATTGTAAATGATGCACCCTCGAAGCTGAGTGTAA
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* * * *
653462 TCAAACTCGAGGGTCTTTGGCATATAG
65 TCGAACTCGAGGATTTTTGGCAGATAG
653489 TATACCATCC
Statistics
Matches: 701, Mismatches: 114, Indels: 41
0.82 0.13 0.05
Matches are distributed among these distances:
245 74 0.11
246 119 0.17
247 6 0.01
248 6 0.01
249 448 0.64
250 48 0.07
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (248 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
CGAACTCGAGGATTTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCCT
TGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATG
CTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG
Found at i:653175 original size:414 final size:411
Alignment explanation
Indices: 652573--653332 Score: 1157
Period size: 414 Copynumber: 1.8 Consensus size: 411
652563 CTTTGGTTGA
* * * * **
652573 CAGATAACCCTTCTAGCCTTGAGTTATGCTACAAATGATATGCCTTCGAAGTTGAGTGTAATCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATATGCCTTCGAAGCTGAACGTAATCGA
** * * * *
652638 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTATAAATGATGTGTCTTGCA
66 ACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGCA
*
652703 GCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAAACCTTCTAGCCTTGAGTTATGCT
131 GCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGACAGATAAACCTTCTAGCCTTGAGTTATGCT
*
652768 GCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCT
196 GCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCT
* * **
652833 CGACTTAAGCTATGCTGCAAATGTTGTACCTTTGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTT
261 CGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCAAAGTCAAACTCGAAGGTC-TTT
652898 GG-TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGACGTGCCCTCGAAATTGAGTGT
325 GGTTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGACGTGCCCTCGAAATTGAGTGT
652962 AATCAAACTCGAGAGTTTTTGG
390 AATCAAACTCGAGAGTTTTTGG
* * * *
652984 CAGATAGCCCTTCTTGACTTAAGCTATGCTACAAATGATGTGCCTT-GAAGCTGAACGTAGTCGA
1 CAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATATGCCTTCGAAGCTGAACGTAATCGA
* * *
653048 ACTCGAAGGTCTTTGGTTAGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
66 ACTCGAAGGTCTTT-G---GCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCT
* * *
653113 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTT
127 TGCAGCTGAGCGTAGTCGAACTCGAAGGT-ATTTGGTTGACAGATAAACCTTCTAGCCTTGAGTT
* * *
653177 ATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCC
191 ATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCC
653242 CTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCAAAGTCAAACTCGAAGGT
256 CTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCAAAGTCAAACTCGAAGGT
*
653307 CTTTGGTTGGCAGATAACCCTTCTAG
321 CTTTGGTTGACAGATAACCCTTCTAG
653333 ATTTAAGTTA
Statistics
Matches: 311, Mismatches: 32, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
410 26 0.08
411 41 0.13
413 5 0.02
414 234 0.75
415 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (411 bp):
CAGATAACCCTTCTAGACTTAAGCTATGCTACAAATGATATGCCTTCGAAGCTGAACGTAATCGA
ACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGCA
GCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTGACAGATAAACCTTCTAGCCTTGAGTTATGCT
GCAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCT
CGACTTAAGCTATGCTGCAAATGATGTACCTTGGAGCTGAGCAAAGTCAAACTCGAAGGTCTTTG
GTTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGACGTGCCCTCGAAATTGAGTGTA
ATCAAACTCGAGAGTTTTTGG
Found at i:654797 original size:54 final size:54
Alignment explanation
Indices: 654719--654842 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
654709 AACTAGTAAC
* *
654719 CCGTGCCCACGCCTTAACTAAAGACCTTTTCTGCGATAGCTTAGAATGAATAAG
1 CCGTGCCCACGCCTTAACTAAAGACCTTTTCTGCGATAGCTCAAAATGAATAAG
*
654773 CCGTGCCCACGCCTTAACTGAAGACCTTTTCTGCGATAGCTCAAAATGAATAAG
1 CCGTGCCCACGCCTTAACTAAAGACCTTTTCTGCGATAGCTCAAAATGAATAAG
654827 CCGTGCCCACGCCTTA
1 CCGTGCCCACGCCTTA
654843 TGCGAAAACC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (54 bp):
CCGTGCCCACGCCTTAACTAAAGACCTTTTCTGCGATAGCTCAAAATGAATAAG
Found at i:654859 original size:54 final size:53
Alignment explanation
Indices: 654719--654859 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 53
654709 AACTAGTAAC
* * *
654719 CCGTGCCCACGCCTTAACTAAAGACCTTTTCTGCGATAGCTTAGAATGAATAAG
1 CCGTGCCCACGCCTTAACGAAA-ACCTTTTCTGCGATAGCTCAAAATGAATAAG
*
654773 CCGTGCCCACGCCTTAACTGAAGACCTTTTCTGCGATAGCTCAAAATGAATAAG
1 CCGTGCCCACGCCTTAAC-GAAAACCTTTTCTGCGATAGCTCAAAATGAATAAG
* *
654827 CCGTGCCCACGCCTTATGCGAAAACCTCTTCTG
1 CCGTGCCCACGCCTTA-ACGAAAACCTTTTCTG
654860 GTCTTTTCGT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 75 0.96
55 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (53 bp):
CCGTGCCCACGCCTTAACGAAAACCTTTTCTGCGATAGCTCAAAATGAATAAG
Found at i:655361 original size:24 final size:24
Alignment explanation
Indices: 655290--655378 Score: 107
Period size: 23 Copynumber: 3.8 Consensus size: 24
655280 ACATATTATA
*
655290 TGGCACTACGGTGC-AATTCTACG
1 TGGCACTTCGGTGCAAATTCTACG
655313 TGGCACTTCGGTGC--ATCTCTACG
1 TGGCACTTCGGTGCAAAT-TCTACG
655336 TGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
655360 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
655379 TATATGAGCT
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
22 3 0.05
23 30 0.52
24 22 0.38
25 3 0.05
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:668853 original size:10 final size:10
Alignment explanation
Indices: 668838--668907 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 10
668828 ATGGAAATAA
668838 AAATAAAAAT
1 AAATAAAAAT
*
668848 AAATAAGAAT
1 AAATAAAAAT
*
668858 GAATAGAAAATGAT
1 -AA-ATAAAA--AT
668872 AAATAAAAAT
1 AAATAAAAAT
*
668882 AAA-AGAAAT
1 AAATAAAAAT
668891 AAATAAAAGA-
1 AAATAAAA-AT
668901 AAATAAA
1 AAATAAA
668908 TTAAAAGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 8 0.17
10 24 0.50
11 3 0.06
12 9 0.19
13 2 0.04
14 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:668892 original size:15 final size:15
Alignment explanation
Indices: 668872--668916 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
668862 AGAAAATGAT
668872 AAATAAAAATAAAAG
1 AAATAAAAATAAAAG
668887 AAAT--AAATAAAAG
1 AAATAAAAATAAAAG
*
668900 AAA-ATAAATTAAAAG
1 AAATA-AAAATAAAAG
668915 AA
1 AA
668917 TATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.46
15 14 0.54
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (15 bp):
AAATAAAAATAAAAG
Found at i:668912 original size:19 final size:19
Alignment explanation
Indices: 668870--668908 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
668860 ATAGAAAATG
*
668870 ATAAATAAAAATAAAAGAA
1 ATAAATAAAAAGAAAAGAA
*
668889 ATAAAT-AAAAGAAAATAA
1 ATAAATAAAAAGAAAAGAA
668907 AT
1 AT
668909 TAAAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (19 bp):
ATAAATAAAAAGAAAAGAA
Found at i:668918 original size:13 final size:13
Alignment explanation
Indices: 668878--668916 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 13
668868 TGATAAATAA
668878 AAATAAAAGAAAT
1 AAATAAAAGAAAT
668891 AAATAAAAGAAAAT
1 AAATAAAAG-AAAT
668905 AAATTAAAAGAA
1 AAA-TAAAAGAA
668917 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.38
14 9 0.38
15 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATAAAAGAAAT
Found at i:670030 original size:34 final size:37
Alignment explanation
Indices: 669992--670079 Score: 121
Period size: 36 Copynumber: 2.5 Consensus size: 37
669982 CTATTTATTT
*
669992 AAAACTATATA-TA-AT-ATGTTTCAAAAATATTTTC
1 AAAACTATATATTATATAATGTTTAAAAAATATTTTC
*
670026 AAAACTATATATTATATAATTTTTAAAAAATATTTTC
1 AAAACTATATATTATATAATGTTTAAAAAATATTTTC
*
670063 -AAACTATATGTTATATA
1 AAAACTATATATTATATA
670080 GTTTTCAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 11 0.23
35 2 0.04
36 18 0.38
37 17 0.35
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (37 bp):
AAAACTATATATTATATAATGTTTAAAAAATATTTTC
Found at i:670147 original size:37 final size:38
Alignment explanation
Indices: 670068--670168 Score: 134
Period size: 39 Copynumber: 2.6 Consensus size: 38
670058 TTTTCAAACT
* *
670068 ATATGTTATATAGTTTTCAACATGTTTTTTTTAAATAAC
1 ATATATTATATA-TTTTCAAAATGTTTTTTTTAAATAAC
670107 ATATATTATATATTTTCAAAATG-TTTTTTTAAA-AAGC
1 ATATATTATATATTTTCAAAATGTTTTTTTTAAATAA-C
670144 ATATATTATATATATTTTCAAAATG
1 ATATA-T-TATATATTTTCAAAATG
670169 ACTTAAAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 2 0.04
37 16 0.28
38 11 0.19
39 28 0.49
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (38 bp):
ATATATTATATATTTTCAAAATGTTTTTTTTAAATAAC
Found at i:670198 original size:76 final size:76
Alignment explanation
Indices: 670097--670297 Score: 172
Period size: 76 Copynumber: 2.7 Consensus size: 76
670087 ACATGTTTTT
670097 TTTAAATAAC-ATATATTA--TAT-ATTTTCAAAATGTTTTTTTAAAAAGC-ATATATT-ATATA
1 TTTAAA-AACTATATATTATGTATAATTTTCAAAATG-TTTTTTAAAAA-CTATATATTAATATA
*
670156 TATTTTCAAAATGAC
63 TATTTTCAAAACG-C
* * * **
670171 -TTAAAAACTATGTATTATGTATAATTTTTAAAAATG--CTTTGGAAACTATATATTACATATAT
1 TTTAAAAACTATATATTATGTATAA-TTTTCAAAATGTTTTTTAAAAACTATATATTA-ATATAT
670233 ATTTTCAAAACGC
64 ATTTTCAAAACGC
* * *
670246 TTTAAAAACTATATATTATGT-TAGTTTCCACAAT-TATTTTTAAAAAACTATA
1 TTTAAAAACTATATATTATGTATAATTTTCAAAATGT-TTTTT-AAAAACTATA
670298 ATATAAAGAA
Statistics
Matches: 100, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
72 3 0.03
73 13 0.13
74 20 0.20
75 6 0.06
76 40 0.40
77 18 0.18
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (76 bp):
TTTAAAAACTATATATTATGTATAATTTTCAAAATGTTTTTTAAAAACTATATATTAATATATAT
TTTCAAAACGC
Found at i:670217 original size:38 final size:38
Alignment explanation
Indices: 670134--670266 Score: 123
Period size: 38 Copynumber: 3.6 Consensus size: 38
670124 AAAATGTTTT
* *
670134 TTTAAAAAGC-ATATATTA--TATATATTTTCAAAATGAC
1 TTTAAAAA-CTATATATTATGTATATATTTTAAAAACG-C
* *
670171 -TTAAAAACTATGTATTATGTATA-ATTTTTAAAAATGC
1 TTTAAAAACTATATATTATGTATATA-TTTTAAAAACGC
** ** *
670208 TTTGGAAACTATATATTACATATATATTTTCAAAACGC
1 TTTAAAAACTATATATTATGTATATATTTTAAAAACGC
670246 TTTAAAAACTATATATTATGT
1 TTTAAAAACTATATATTATGT
670267 TAGTTTCCAC
Statistics
Matches: 77, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
35 1 0.01
36 14 0.18
37 2 0.03
38 59 0.77
39 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTAAAAACTATATATTATGTATATATTTTAAAAACGC
Found at i:671813 original size:53 final size:53
Alignment explanation
Indices: 671751--671852 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
671741 TAAATATTCA
* *
671751 AGTTTCTCTAAAATGAATAATTCACGTGTAGTATTTGCATGTGATACGTTACG
1 AGTTTCTCTAAAATGAATAATTCACGTGCAATATTTGCATGTGATACGTTACG
* *
671804 AGTTTCTCTAAAATGAGTAATTCACGTGCAATGTTTGCATGTGATACGT
1 AGTTTCTCTAAAATGAATAATTCACGTGCAATATTTGCATGTGATACGT
671853 GATTTCTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (53 bp):
AGTTTCTCTAAAATGAATAATTCACGTGCAATATTTGCATGTGATACGTTACG
Found at i:672768 original size:4 final size:4
Alignment explanation
Indices: 672759--672931 Score: 70
Period size: 4 Copynumber: 44.0 Consensus size: 4
672749 AATTTGAACA
** **
672759 ATTT ATTT ATTT ATTT ATTT -TGG ATTT ATTT ATTT ATTT -TAA ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * **
672805 ATTC ATTCC ACTTAA AATT ATTT ATTT ATTT ATTT -TAA ATTT ATTT ATTT
1 ATTT ATT-T A-TT-T ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * ** * * * ** *
672855 AGTT GTTT -TGA ATTT ATTT AGTT GTTT GTTT -TGA AATT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
672901 ATTT ATTT -TTA ATTT ATTC ATTT AGTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
672932 CAAATTTATT
Statistics
Matches: 121, Mismatches: 40, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
3 7 0.06
4 108 0.89
5 3 0.02
6 3 0.02
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.65
Consensus pattern (4 bp):
ATTT
Found at i:672804 original size:19 final size:19
Alignment explanation
Indices: 672763--672960 Score: 99
Period size: 19 Copynumber: 9.4 Consensus size: 19
672753 TGAACAATTT
**
672763 ATTTATTTATTTATTTTGG
1 ATTTATTTATTTATTTTAA
672782 ATTTATTTATTTATTTTAA
1 ATTTATTTATTTATTTTAA
* * **
672801 ATTTATTCATTCCACTTAAAA
1 ATTTATTTATT-TA-TTTTAA
672822 TTATTTATTTATTTATTTTAA
1 --ATTTATTTATTTATTTTAA
*
672843 ATTTATTTATTTAGTTGTTTTGA
1 ATTTATTTATTTA----TTTTAA
*
672866 ATTTATTTAGTTGTTTGTTTTGAAA
1 ATTTATTTA----TTTATTTT--AA
*
672891 TTATTTATTTATTTATTTTTA
1 --ATTTATTTATTTATTTTAA
*
672912 ATTTATTCATTTAGTTATTTCAA
1 ATTTATTTATTTA--T-TTT-AA
* *
672935 ATTTATTTGTTTGTTTTAA
1 ATTTATTTATTTATTTTAA
*
672954 AATTATT
1 ATTTATT
672961 GAACTTTCGT
Statistics
Matches: 138, Mismatches: 21, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
19 60 0.43
20 4 0.03
21 11 0.08
22 4 0.03
23 46 0.33
25 1 0.01
27 12 0.09
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (19 bp):
ATTTATTTATTTATTTTAA
Found at i:672842 original size:23 final size:23
Alignment explanation
Indices: 672759--672942 Score: 150
Period size: 23 Copynumber: 8.2 Consensus size: 23
672749 AATTTGAACA
*
672759 ATTTATTTATTTA-TTT-ATTTT
1 ATTTATTTATTTATTTTAAATTT
672780 GGATTTATTTATTTATTTTAAATTT
1 --ATTTATTTATTTATTTTAAATTT
* * *
672805 ATTCATTCCACTTA----AAA-TT
1 ATTTATT-TATTTATTTTAAATTT
672824 ATTTATTTATTTATTTTAAATTT
1 ATTTATTTATTTATTTTAAATTT
* * *
672847 ATTTATTTAGTTGTTTTGAATTT
1 ATTTATTTATTTATTTTAAATTT
* * *
672870 ATTTAGTTGTTTGTTTTGAAA-TT
1 ATTTATTTATTTATTTT-AAATTT
*
672893 ATTTATTTATTTATTTTTAATTT
1 ATTTATTTATTTATTTTAAATTT
* * *
672916 ATTCATTTAGTTATTTCAAATTT
1 ATTTATTTATTTATTTTAAATTT
672939 ATTT
1 ATTT
672943 GTTTGTTTTA
Statistics
Matches: 128, Mismatches: 23, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.03
19 8 0.06
20 3 0.02
22 5 0.04
23 95 0.74
24 9 0.07
25 4 0.03
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (23 bp):
ATTTATTTATTTATTTTAAATTT
Found at i:672892 original size:69 final size:69
Alignment explanation
Indices: 672819--672950 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 69
672809 ATTCCACTTA
* * **
672819 AAATTATTTATTTATTTATTTTAAATTTATTTATTTAGTTGTTTTGAATTTATTTAG-TTGTTTG
1 AAATTATTTATTTATTTATTTTAAATTTATTCATTTAGTTATTTCAAATTTATTT-GTTTGTTTG
672883 TTTTG
65 TTTTG
*
672888 AAATTATTTATTTATTTATTTTTAATTTATTCATTTAGTTATTTCAAATTTATTTGTTTGTTT
1 AAATTATTTATTTATTTATTTTAAATTTATTCATTTAGTTATTTCAAATTTATTTGTTTGTTT
672951 TAAAATTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.02
69 56 0.98
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.65
Consensus pattern (69 bp):
AAATTATTTATTTATTTATTTTAAATTTATTCATTTAGTTATTTCAAATTTATTTGTTTGTTTGT
TTTG
Found at i:674001 original size:34 final size:32
Alignment explanation
Indices: 673948--674017 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
673938 CCTTACAAAC
*
673948 TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
* *
673980 TCCCTAGCTTTTACACGGGCTAAGCTAGAACGTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
674014 TCCC
1 TCCC
674018 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:674480 original size:34 final size:29
Alignment explanation
Indices: 674412--674471 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
674402 AAATTTTGAA
* *
674412 TAAATTCAATTAAGTCCAAATACGTTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
674441 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
674472 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:675716 original size:19 final size:20
Alignment explanation
Indices: 675673--675720 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
675663 TCTAAATCCT
*
675673 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
675693 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
675712 TTTTCAAAA
1 TTTTCAAAA
675721 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:676625 original size:33 final size:32
Alignment explanation
Indices: 676573--676641 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
676563 CCTTACAAAC
*
676573 TCCCTAGTTTTTCCGGGCTAA-CTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAGCTAGAACCTT
676604 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAGCTAGAACCTT
676638 TCCC
1 TCCC
676642 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 7 0.21
32 5 0.15
33 8 0.24
34 14 0.41
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAGCTAGAACCTT
Found at i:676950 original size:21 final size:21
Alignment explanation
Indices: 676925--676966 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
676915 CCAGAATGGG
*
676925 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
676946 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
676967 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:677095 original size:19 final size:19
Alignment explanation
Indices: 677071--677137 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
677061 GAGCCTCGGG
*
677071 TTACTGTTCAAACAGTGAT
1 TTACTGTTCAAACAGTAAT
*
677090 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* * *
677109 TTGCTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
*
677128 TTACTATTCA
1 TTACTGTTCA
677138 TAAAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:677249 original size:30 final size:30
Alignment explanation
Indices: 677202--677291 Score: 137
Period size: 30 Copynumber: 3.0 Consensus size: 30
677192 AAATTTTGAA
677202 TAAATTCAATT-AAGTCCAAATACATTTTG
1 TAAATTCAATTCAAGTCCAAATACATTTTG
*
677231 TAAATTCAATTCAAGTCCAAATACGTTTTG
1 TAAATTCAATTCAAGTCCAAATACATTTTG
* *
677261 TAAATTCAATTCAAGTTCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAATA-CATTTTG
677292 CCTTAAATTG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.20
30 38 0.69
31 6 0.11
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAATACATTTTG
Found at i:678075 original size:15 final size:15
Alignment explanation
Indices: 678057--678089 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
678047 TCTGCCTACA
678057 CAACGTCCC-CTGACG
1 CAACGTCCCTC-GACG
678072 CAACGTCCCTCGACG
1 CAACGTCCCTCGACG
678087 CAA
1 CAA
678090 TATGGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.12
Consensus pattern (15 bp):
CAACGTCCCTCGACG
Found at i:679144 original size:178 final size:178
Alignment explanation
Indices: 678845--679199 Score: 710
Period size: 178 Copynumber: 2.0 Consensus size: 178
678835 TAAAAACATA
678845 AAAAAAAATAAACTACACGAGTTGTTTAAAGCTCTCTCTACTGGCATTCACGGACAATACGTAGC
1 AAAAAAAATAAACTACACGAGTTGTTTAAAGCTCTCTCTACTGGCATTCACGGACAATACGTAGC
678910 ATAACTGGTTCATCGTCCTCATAGTTTTGTGATAATCGAGTTACTCTTTCATTGCTTGTTGAATA
66 ATAACTGGTTCATCGTCCTCATAGTTTTGTGATAATCGAGTTACTCTTTCATTGCTTGTTGAATA
678975 TGGTTCTTCCTCAAACGTTACAATCAACTTGATGTTCCTACCACCAAT
131 TGGTTCTTCCTCAAACGTTACAATCAACTTGATGTTCCTACCACCAAT
679023 AAAAAAAATAAACTACACGAGTTGTTTAAAGCTCTCTCTACTGGCATTCACGGACAATACGTAGC
1 AAAAAAAATAAACTACACGAGTTGTTTAAAGCTCTCTCTACTGGCATTCACGGACAATACGTAGC
679088 ATAACTGGTTCATCGTCCTCATAGTTTTGTGATAATCGAGTTACTCTTTCATTGCTTGTTGAATA
66 ATAACTGGTTCATCGTCCTCATAGTTTTGTGATAATCGAGTTACTCTTTCATTGCTTGTTGAATA
679153 TGGTTCTTCCTCAAACGTTACAATCAACTTGATGTTCCTACCACCAA
131 TGGTTCTTCCTCAAACGTTACAATCAACTTGATGTTCCTACCACCAA
679200 CATTTATGTA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 177 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.34
Consensus pattern (178 bp):
AAAAAAAATAAACTACACGAGTTGTTTAAAGCTCTCTCTACTGGCATTCACGGACAATACGTAGC
ATAACTGGTTCATCGTCCTCATAGTTTTGTGATAATCGAGTTACTCTTTCATTGCTTGTTGAATA
TGGTTCTTCCTCAAACGTTACAATCAACTTGATGTTCCTACCACCAAT
Found at i:681306 original size:31 final size:31
Alignment explanation
Indices: 681266--681329 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
681256 AAAACATAAT
*
681266 ATATGGTCACTTTCGTTCTTATTTAATTAAG
1 ATATAGTCACTTTCGTTCTTATTTAATTAAG
* *
681297 ATATAGTCACTTTGGTTTTTATTTAATTAAG
1 ATATAGTCACTTTCGTTCTTATTTAATTAAG
681328 AT
1 AT
681330 GTGGTTACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (31 bp):
ATATAGTCACTTTCGTTCTTATTTAATTAAG
Found at i:685316 original size:21 final size:21
Alignment explanation
Indices: 685290--685340 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
685280 ACTATCGTAT
** *
685290 TGCGATTTTAAAAAATTGCTA
1 TGCGATTTTAAAAAAGCGCAA
**
685311 TGCGATAATAAAAAAGCGCAA
1 TGCGATTTTAAAAAAGCGCAA
685332 TGCGATTTT
1 TGCGATTTT
685341 TCAAATTTAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
TGCGATTTTAAAAAAGCGCAA
Found at i:685356 original size:21 final size:21
Alignment explanation
Indices: 685332--685392 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
685322 AAAAGCGCAA
*
685332 TGCGATTTTTCAAATTTACGT
1 TGCGATTTTTCAAATTCACGT
** * *
685353 TGCGATAGTT-AAAGTCCGCGT
1 TGCGATTTTTCAAA-TTCACGT
685374 TGCGATTTTTCAAATTCAC
1 TGCGATTTTTCAAATTCAC
685393 TGGTGGTATT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
TGCGATTTTTCAAATTCACGT
Found at i:685838 original size:20 final size:19
Alignment explanation
Indices: 685770--685855 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 19
685760 TATTTTGAAT
* * *
685770 TTTTCACTATCGTAACACT
1 TTTTAACTATCGCAACACA
*
685789 TTTTCACTATCGCAACAACA
1 TTTTAACTATCGCAAC-ACA
*
685809 CGTTTTTTAAACTCTCGCAACACA
1 ----TTTT-AACTATCGCAACACA
685833 TTTTAACTATCGCAACACA
1 TTTTAACTATCGCAACACA
685852 TTTT
1 TTTT
685856 TCAAAATCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
19 33 0.59
20 6 0.11
24 7 0.12
25 10 0.18
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTTAACTATCGCAACACA
Found at i:685888 original size:20 final size:20
Alignment explanation
Indices: 685860--685935 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
685850 CATTTTTCAA
* *
685860 AATCTCGTTACGAATCTTAC
1 AATCGCGTTGCGAATCTTAC
685880 AATCGCGTTGCGAATCTTAC
1 AATCGCGTTGCGAATCTTAC
* *
685900 AATCGCGTTGCGAATCTGGAT
1 AATCGCGTTGCGAATCT-TAC
*
685921 ATTCGCGTTGCGAAT
1 AATCGCGTTGCGAAT
685936 TTGGAAACTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 35 0.70
21 15 0.30
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (20 bp):
AATCGCGTTGCGAATCTTAC
Found at i:687782 original size:17 final size:18
Alignment explanation
Indices: 687718--687780 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 18
687708 CGACAATTAA
687718 ACTGTACTG--TTCTCTT
1 ACTGTACTGATTTCTCTT
* * * *
687734 ATTGTGCTTATTTCTTTT
1 ACTGTACTGATTTCTCTT
* *
687752 ACTATA-TTATTTCTCTT
1 ACTGTACTGATTTCTCTT
687769 ACTGTACTGATT
1 ACTGTACTGATT
687781 CTTTGATTGT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
16 6 0.18
17 15 0.44
18 13 0.38
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (18 bp):
ACTGTACTGATTTCTCTT
Found at i:687820 original size:17 final size:17
Alignment explanation
Indices: 687742--687825 Score: 62
Period size: 17 Copynumber: 4.9 Consensus size: 17
687732 TTATTGTGCT
* *
687742 TATTTCTTTTACTATAT
1 TATTTCTTTTACTGTAC
*
687759 TATTTCTCTTACTGTAC
1 TATTTCTTTTACTGTAC
* * *
687776 TGA-TTCTTTGATTGTAT
1 T-ATTTCTTTTACTGTAC
* *
687793 TGTTTCATTTACTGTAC
1 TATTTCTTTTACTGTAC
* *
687810 TATTACTTTTAGTGTA
1 TATTTCTTTTACTGTA
687826 TTCTTACTGA
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
17 48 0.98
18 1 0.02
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (17 bp):
TATTTCTTTTACTGTAC
Found at i:688185 original size:31 final size:31
Alignment explanation
Indices: 688150--688221 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
688140 AATATATAAG
*
688150 ATATGATCACTTCCGTTTTTATTTAATTAAA
1 ATATGATCACTTCCATTTTTATTTAATTAAA
** * *
688181 ATATGATCACTTTTATTTTTATTTATTTAAT
1 ATATGATCACTTCCATTTTTATTTAATTAAA
688212 ATATGATCAC
1 ATATGATCAC
688222 CATGGGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (31 bp):
ATATGATCACTTCCATTTTTATTTAATTAAA
Found at i:689876 original size:2 final size:2
Alignment explanation
Indices: 689869--689906 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
689859 AAGTGCCAAC
689869 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
689907 TTGGCATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:692266 original size:2 final size:2
Alignment explanation
Indices: 692259--692297 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
692249 TAAACACTAC
692259 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 T
692298 TACTTACCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:693461 original size:3 final size:3
Alignment explanation
Indices: 693453--693501 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
693443 AACAAAAAAC
*
693453 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
693501 A
1 A
693502 ATGGTTCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:695153 original size:19 final size:20
Alignment explanation
Indices: 695129--695182 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
695119 ATTTTTTCTC
695129 TTTTATTTTAATTATTA-AA
1 TTTTATTTTAATTATTATAA
* *
695148 TTTTA-TTTAATCATCATAA
1 TTTTATTTTAATTATTATAA
695167 -TTTATTTT-ATTATTAT
1 TTTTATTTTAATTATTAT
695183 TTTATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATTTTAATTATTATAA
Found at i:696147 original size:5 final size:5
Alignment explanation
Indices: 696137--696161 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
696127 TATAAATCAC
696137 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
696162 TTACAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:703697 original size:25 final size:25
Alignment explanation
Indices: 703649--703697 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
703639 AAATTCATAA
*
703649 AATTTTAGAGAAAATAAACTTAAAG
1 AATTTTAGAGAAAATAAACATAAAG
*
703674 AATTTTATAGAAAAATAAA-ATAAA
1 AATTTTAGAG-AAAATAAACATAAA
703698 TTACTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTTAGAGAAAATAAACATAAAG
Found at i:711416 original size:31 final size:31
Alignment explanation
Indices: 711381--711442 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
711371 AAATCCAATG
711381 CATAAAGTTTAGTGGTCAAATTGATAATAAT
1 CATAAAGTTTAGTGGTCAAATTGATAATAAT
711412 CATAAAGTTTAGTGGTCAAATTGATAATAAT
1 CATAAAGTTTAGTGGTCAAATTGATAATAAT
711443 TAGAAGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.35
Consensus pattern (31 bp):
CATAAAGTTTAGTGGTCAAATTGATAATAAT
Found at i:714077 original size:3 final size:3
Alignment explanation
Indices: 714069--714094 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
714059 CTATTTTTCT
714069 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
714095 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:714970 original size:38 final size:38
Alignment explanation
Indices: 714928--715014 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
714918 GGAAGTCAAT
* * *
714928 AATAACAAATAATTACTCCTCTTCGCGACGGAGTCGGG
1 AATAACAAAGAATGACTCCTCTTCGCGACGGAGTCGAG
*
714966 AATAACAAAGAATGACTCCTCTTCGCGGCGGAGTCGAG
1 AATAACAAAGAATGACTCCTCTTCGCGACGGAGTCGAG
715004 AATAACAAAGA
1 AATAACAAAGA
715015 TTGAAGGAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (38 bp):
AATAACAAAGAATGACTCCTCTTCGCGACGGAGTCGAG
Done.