Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001750.1 Hibiscus syriacus cultivar Beakdansim tig00003541_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: 146409
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Found at i:6633 original size:31 final size:31
Alignment explanation
Indices: 6597--6657 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
6587 CAGTTACATT
*
6597 GGGGACCATATTGCAAACGGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATGTTG
*
6628 GGGGACTATATTGCAAACAGACTAAATGTT
1 GGGGACCATATTGCAAACAGACTAAATGTT
6658 AGGAGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATGTTG
Found at i:6671 original size:31 final size:31
Alignment explanation
Indices: 6604--6674 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
6594 ATTGGGGACC
* * *
6604 ATATTGCAAACGGACTAAATGTTGGGGGACT
1 ATATTGCAAACAGACTAAATGTTAGGAGACT
*
6635 ATATTGCAAACAGACTAAATGTTAGGAGATT
1 ATATTGCAAACAGACTAAATGTTAGGAGACT
*
6666 GTATTGCAA
1 ATATTGCAA
6675 GTTTTAAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (31 bp):
ATATTGCAAACAGACTAAATGTTAGGAGACT
Found at i:7759 original size:27 final size:30
Alignment explanation
Indices: 7729--7789 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
7719 TATGGTCTCC
7729 AACAG-TT-ACGTTGGG-GACCATATTGCA
1 AACAGATTAACGTTGGGAGACCATATTGCA
* *
7756 AACAGATTAGATGTTGGGAGACTATATTGCA
1 AACAGATTA-ACGTTGGGAGACCATATTGCA
7787 AAC
1 AAC
7790 GGACTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 2 0.07
30 7 0.25
31 14 0.50
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (30 bp):
AACAGATTAACGTTGGGAGACCATATTGCA
Found at i:7784 original size:31 final size:30
Alignment explanation
Indices: 7738--7818 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
7728 CAACAGTTAC
* * *
7738 GTTGGGGACCATATTGCAAACAGATTAGAT
1 GTTGGGGACTATATTGCAAACAGACTAAAT
*
7768 GTTGGGAGACTATATTGCAAACGGACTAAAT
1 GTTGGG-GACTATATTGCAAACAGACTAAAT
*
7799 GTTGGGGGACTGTATTGCAA
1 GTT-GGGGACTATATTGCAA
7819 GTTTTAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 6 0.14
31 35 0.80
32 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (30 bp):
GTTGGGGACTATATTGCAAACAGACTAAAT
Found at i:10104 original size:35 final size:35
Alignment explanation
Indices: 10057--10124 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
10047 TTTGCCTAAA
10057 CAAAACTCCATTGTAAAGGCCGATAAAACTAGAAT
1 CAAAACTCCATTGTAAAGGCCGATAAAACTAGAAT
* *
10092 CAAAACTTCATTGTAAAGGCTGATAAAACTAGA
1 CAAAACTCCATTGTAAAGGCCGATAAAACTAGA
10125 TTCCTTCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.22
Consensus pattern (35 bp):
CAAAACTCCATTGTAAAGGCCGATAAAACTAGAAT
Found at i:19657 original size:2 final size:2
Alignment explanation
Indices: 19650--19685 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19640 CTGTATGTTA
19650 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
19686 TTGAATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21599 original size:12 final size:12
Alignment explanation
Indices: 21574--21666 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
21564 ACGGAGATAT
* *
21574 CAGAAATCAAAA
1 CAGAATTCAGAA
21586 CAGAATTCAGAA
1 CAGAATTCAGAA
*
21598 CA-AATATCATAA
1 CAGAAT-TCAGAA
* *
21610 CAGAATCCAGAT
1 CAGAATTCAGAA
*
21622 CAGAAATCAGAA
1 CAGAATTCAGAA
* **
21634 CAAAATTCAGGT
1 CAGAATTCAGAA
*
21646 CA-TATATCAGAA
1 CAGAAT-TCAGAA
21658 CAGAATTCA
1 CAGAATTCA
21667 AGTCGGAAAT
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 5 0.08
12 50 0.83
13 5 0.08
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:21606 original size:24 final size:24
Alignment explanation
Indices: 21579--21666 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
21569 GATATCAGAA
* *
21579 ATCAAAACAGAATTCAGAACAAAT
1 ATCAGAACAGAATTCAGATCAAAT
* *
21603 ATCATAACAGAATCCAGATCAGAA-
1 ATCAGAACAGAATTCAGATCA-AAT
* * *
21627 ATCAGAACAAAATTCAGGTCATAT
1 ATCAGAACAGAATTCAGATCAAAT
21651 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
21667 AGTCGGAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.02
24 50 0.94
25 2 0.04
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATCAAAT
Found at i:21643 original size:48 final size:48
Alignment explanation
Indices: 21572--21680 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
21562 AAACGGAGAT
* *
21572 ATCAGAAATCAAAACAGAATTCAGAACAAATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAACAAATATCAGAACAGAATCCAG
* ** * *
21620 ATCAGAAATCAGAACAAAATTCAGGTCATATATCAGAACAGAATTCA-
1 ATCAGAAATCAAAACAAAATTCAGAACAAATATCAGAACAGAATCCAG
*
21667 AGTCGGAAATCAAA
1 A-TCAGAAATCAAA
21681 TAAAATATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.02
48 50 0.98
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGAACAAATATCAGAACAGAATCCAG
Found at i:21678 original size:24 final size:24
Alignment explanation
Indices: 21621--21686 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
21611 AGAATCCAGA
*
21621 TCAGAAATCAGAACAAAATTCAGG
1 TCAGAAATCAGAACAAAATTCAAG
* * *
21645 TCATATATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAAAATTCAAG
* *
21669 TCGGAAATCA-AATAAAAT
1 TCAGAAATCAGAACAAAAT
21687 ATTTATATGA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.21
Consensus pattern (24 bp):
TCAGAAATCAGAACAAAATTCAAG
Found at i:23420 original size:36 final size:36
Alignment explanation
Indices: 23373--23445 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
23363 GATAAATTAT
23373 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
* *
23409 AATCTACATATCGATGGTTGATTCTTTTATCACTTA
1 AATCTACATATCCATGGCTGATTCTTTTATCACTTA
23445 A
1 A
23446 TTCCAGAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (36 bp):
AATCTACATATCCATGGCTGATTCTTTTATCACTTA
Found at i:24115 original size:13 final size:13
Alignment explanation
Indices: 24097--24143 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 13
24087 GTCGGTCAAC
24097 GGTCAACGGGTCG
1 GGTCAACGGGTCG
24110 GGTCAACGGGTTGGTCG
1 GGTCAAC--G--GGTCG
24127 GGTCAACGGGTCG
1 GGTCAACGGGTCG
24140 GGTC
1 GGTC
24144 GGGTTGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 16 0.53
15 2 0.07
17 12 0.40
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.19
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:24116 original size:30 final size:29
Alignment explanation
Indices: 24080--24143 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
24070 TCAAAGTTTT
24080 GGTCAAC-GTCGGTCAACGGTCAACGGGTCG
1 GGTCAACGGTCGGTC--CGGTCAACGGGTCG
* *
24110 GGTCAACGGGTTGGTCGGGTCAACGGGTCG
1 GGTCAAC-GGTCGGTCCGGTCAACGGGTCG
24140 GGTC
1 GGTC
24144 GGGTTGTGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 24 0.80
32 6 0.20
ACGTcount: A:0.16, C:0.23, G:0.42, T:0.19
Consensus pattern (29 bp):
GGTCAACGGTCGGTCCGGTCAACGGGTCG
Found at i:24127 original size:17 final size:18
Alignment explanation
Indices: 24103--24147 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
24093 CAACGGTCAA
24103 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
24121 -TGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
24138 CGGGTCGGGT
1 CGGGTCGGGT
24148 TGTGACCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:27315 original size:23 final size:23
Alignment explanation
Indices: 27274--27317 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27264 GGCATGGTGC
**
27274 ATTATTAATGGCATTTTTTGAAG
1 ATTATTAATGGCACGTTTTGAAG
*
27297 ATTATTAATGGCCCGTTTTGA
1 ATTATTAATGGCACGTTTTGA
27318 CATTTTCGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (23 bp):
ATTATTAATGGCACGTTTTGAAG
Found at i:27391 original size:148 final size:148
Alignment explanation
Indices: 27206--27809 Score: 861
Period size: 148 Copynumber: 4.1 Consensus size: 148
27196 AGTTGATATA
* * * * *
27206 TCACTGAAAAGTTGTTGAAGATAATTGATAGGGCAATGAAAATTTGTTGGCATTTTCTGGCATGG
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCAATGAAAAGTTGTTGACATTTTCTGGCATGG
*
27271 TGCATTATTAATGGCATTTTTTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCAT-GTAG
66 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGGT-G
*
27335 AATTATTAGAGATGACATT
130 CATTATTAGAGATGACATT
* * * *
27354 TCACTGAAAAGTTGTTGAAGATGATTGATGGGGCAATGAAAAATTGTTGACATATTCTGGTATGG
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCAATGAAAAGTTGTTGACATTTTCTGGCATGG
* * * *
27419 TGCATTATTAATTGCATTTT-TGAAGATTATTAATAGCTCATTTTGACATTTTCGGGCATGGTGC
66 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGGTGC
*
27483 ATTATTAAAGATGACATT
131 ATTATTAGAGATGACATT
* * * *
27501 TCACTGAAAAGTTGCTGAAGATGATTAATGGTGCACTGAAAAGTTGTTGACATTTTCTGACATGG
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCAATGAAAAGTTGTTGACATTTTCTGGCATGG
* *
27566 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGATATATTCGGGCATGGTGC
66 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGGTGC
* *
27631 ATTATTAGATATGAAATT
131 ATTATTAGAGATGACATT
* * * * * * **
27649 TCACTAAAAAGTTGCTGAAGATGGTTGATTGGGCACTGAAAAGTTGTTGGCATTTTCTAGCATTA
1 TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCAATGAAAAGTTGTTGACATTTTCTGGCATGG
* *
27714 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGTTGT
66 TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGGTGC
* *
27779 ATTATTACAGATGTCATT
131 ATTATTAGAGATGACATT
27797 TCACTGAAAAGTT
1 TCACTGAAAAGTT
27810 ACTGGCATTT
Statistics
Matches: 406, Mismatches: 48, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
147 130 0.32
148 276 0.68
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (148 bp):
TCACTGAAAAGTTGCTGAAGATGATTGATGGGGCAATGAAAAGTTGTTGACATTTTCTGGCATGG
TGCATTATTAATGGCATTTTCTGAAGATTATTAATGGCCCGTTTTGACATTTTCGGGCATGGTGC
ATTATTAGAGATGACATT
Found at i:27888 original size:116 final size:116
Alignment explanation
Indices: 27682--27907 Score: 355
Period size: 116 Copynumber: 1.9 Consensus size: 116
27672 GTTGATTGGG
**
27682 CACTGAAAAGTTGTTGGCATTTTCTAGCATTATGCATTATTAATGGCATTTTCTGAAGATTATTA
1 CACTGAAAAGTTACTGGCATTTTCTAGCATTATGCATTATTAATGGCATTTTCTGAAGATTATTA
* *
27747 ATGGCCCGTTTTGACATTTTCGGGCATGTTGTATTATTACAGATGTCATTT
66 ATGGCCCGTTTTGACATTTTCGGGCATGGTGCATTATTACAGATGTCATTT
* * *
27798 CACTGAAAAGTTACTGGCATTTTCTGGCATGT-TGCATTATTAATGGCATTTTTTGAAGTTTATT
1 CACTGAAAAGTTACTGGCATTTTCTAGCAT-TATGCATTATTAATGGCATTTTCTGAAGATTATT
* *
27862 AATGGCCCGTTTTGACATTTTTGGGCATGGTGCATTATTAGAGATG
65 AATGGCCCGTTTTGACATTTTCGGGCATGGTGCATTATTACAGATG
27908 AAATTTTACT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 99 0.99
117 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (116 bp):
CACTGAAAAGTTACTGGCATTTTCTAGCATTATGCATTATTAATGGCATTTTCTGAAGATTATTA
ATGGCCCGTTTTGACATTTTCGGGCATGGTGCATTATTACAGATGTCATTT
Found at i:29765 original size:23 final size:23
Alignment explanation
Indices: 29739--29816 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
29729 CACCACAGCT
29739 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
29762 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* ** *
29785 CATAGAATTTTACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
29808 TATAATAAT
1 CAT-ATAAT
29817 GTCCATAAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:29994 original size:103 final size:103
Alignment explanation
Indices: 29826--30040 Score: 403
Period size: 103 Copynumber: 2.1 Consensus size: 103
29816 TGTCCATAAA
* *
29826 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
29891 TTCACACATGTTCCAAAGAATACATATATGTCTCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCTCGAAG
*
29929 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
29994 TTCACACATGTTCCAAAGAATACATATATGTCTCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCTCGAAG
30032 GACCACATA
1 GACCACATA
30041 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCTCGAAG
Found at i:32919 original size:12 final size:12
Alignment explanation
Indices: 32902--32927 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32892 ACAAATCATT
32902 TATTTTTTTTCA
1 TATTTTTTTTCA
32914 TATTTTTTTTCA
1 TATTTTTTTTCA
32926 TA
1 TA
32928 ATCCTATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTTTTTCA
Found at i:36599 original size:23 final size:23
Alignment explanation
Indices: 36573--36650 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
36563 CACCACAGCT
36573 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
36596 CATATAATTGCACTGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
36619 TATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
36642 TATAATAAT
1 CAT-ATAAT
36651 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:36833 original size:103 final size:97
Alignment explanation
Indices: 36660--36868 Score: 328
Period size: 103 Copynumber: 2.1 Consensus size: 97
36650 TGTCCATAAG
*
36660 GACCACATATCATTCTTTAAGAATCATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACA
1 GACCACATATCATTCCTTAAGAATCATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACA
*
36725 CATGTTCCAAACAATACATATATGTTCCGAAA
66 CATGTTCCAAACAATACATATATGTCCCGAAA
36757 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATAC-TA-G----GGATCAAGTATGTGTCTCACCAGAC
* *
36822 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
60 TTCACACATGTTCCAAACAATACATATATGTCCCGAAA
36860 GACCACATA
1 GACCACATA
36869 GACACTCGAC
Statistics
Matches: 102, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
97 30 0.29
98 2 0.02
99 1 0.01
103 69 0.68
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (97 bp):
GACCACATATCATTCCTTAAGAATCATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACA
CATGTTCCAAACAATACATATATGTCCCGAAA
Found at i:42032 original size:23 final size:23
Alignment explanation
Indices: 42006--42050 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
41996 CACCACAGCT
*
42006 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
42029 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
42051 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:42288 original size:149 final size:149
Alignment explanation
Indices: 42018--42332 Score: 605
Period size: 149 Copynumber: 2.1 Consensus size: 149
42008 TATAATTGCA
42018 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAA
42082 TTCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTT
42147 CCAAAGAATATATATATATC
130 CCAAAGAATATATATATATC
*
42167 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
42232 TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTC
42297 CAAAGAATATATATATATC
131 CAAAGAATATATATATATC
42316 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
42333 CCCTCGACTC
Statistics
Matches: 164, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 163 0.99
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTC
CAAAGAATATATATATATC
Found at i:43234 original size:18 final size:18
Alignment explanation
Indices: 43213--43247 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43203 TCCCATCTAG
43213 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
43231 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
43248 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:43834 original size:64 final size:66
Alignment explanation
Indices: 43734--43858 Score: 193
Period size: 64 Copynumber: 1.9 Consensus size: 66
43724 TAATGAAGGT
* *
43734 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTTAATGGG
1 ATGCATCGATGCACTACACCACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGG
43798 G
66 G
*
43799 ATGCATCGATGCACT-C-CTTACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA
1 ATGCATCGATGCACTACAC-CACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA
43859 ATTCATGCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 1 0.02
64 29 0.53
65 25 0.45
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (66 bp):
ATGCATCGATGCACTACACCACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGG
G
Found at i:43867 original size:64 final size:64
Alignment explanation
Indices: 43734--43877 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
43724 TAATGAAGGT
* * *
43734 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTACACCACGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGC
*
43799 ATGCATCGATGCACT-C-CTTACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT-
1 ATGCATCGATGCACTACAC-CACGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATG
*
43861 TC
63 GC
43863 ATGCATCGATGCACT
1 ATGCATCGATGCACT
43878 GCATGTCCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
63 1 0.01
64 44 0.62
65 23 0.32
66 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACACCACGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGC
Found at i:43889 original size:64 final size:61
Alignment explanation
Indices: 43734--43894 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 61
43724 TAATGAAGGT
* * * *
43734 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-CA--TTCCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGC
* *
43799 ATGCATCGATGCACTCCTTACGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT-TC
1 ATGCATCGATGCACTCATT-C-CATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGC
43863 ATGCATCGATGCACTGCATGTCCATCGATGCA
1 ATGCATCGATGCACT-CAT-TCCATCGATGCA
43895 CCATAAACAA
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
64 52 0.63
65 26 0.31
66 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (61 bp):
ATGCATCGATGCACTCATTCCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGC
Found at i:45673 original size:2 final size:2
Alignment explanation
Indices: 45666--45707 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
45656 CCTCCACTTC
45666 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
45708 CTTTAACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47307 original size:23 final size:23
Alignment explanation
Indices: 47281--47325 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47271 CACCACAGCT
* *
47281 CGTATAATTGCACTGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
47304 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
47326 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:47571 original size:149 final size:147
Alignment explanation
Indices: 47301--47605 Score: 574
Period size: 149 Copynumber: 2.1 Consensus size: 147
47291 CACTGAAGTG
47301 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAG
47366 AATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTCCAAAGAAT
66 AATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTCCAAAG-A-
47431 ATATATATATCCCGAAGGA
129 ATATATATATCCCGAAGGA
* *
47450 CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAG
47515 AATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTCCAAAGAAT
66 AATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTCCAAAGAAT
47580 ATATATATCCCGAAGGA
131 ATATATATCCCGAAGGA
47597 CCGCGTAGA
1 CCGCGTAGA
47606 CCCTCGACTC
Statistics
Matches: 154, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
147 28 0.18
148 1 0.01
149 125 0.81
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (147 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATAGAATTCCTTAAG
AATCATATACATATGCTAGGGATCATATATGTGTCTCACCAGACTTCACACATGTTCCAAAGAAT
ATATATATCCCGAAGGA
Found at i:48159 original size:2 final size:2
Alignment explanation
Indices: 48152--48179 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48142 TCTCTTAGAC
48152 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
48180 TCACATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48531 original size:18 final size:18
Alignment explanation
Indices: 48510--48544 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48500 TCCCATCTAG
48510 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
48528 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
48545 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:49134 original size:64 final size:63
Alignment explanation
Indices: 49036--49196 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 63
49026 TAATGAAGGT
* *
49036 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTT-AATGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT--
*
49099 GG
62 GC
*
49101 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
* *
49165 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
49197 CCTTAAATAA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 58 0.67
65 24 0.28
66 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAATGC
Found at i:51391 original size:3 final size:3
Alignment explanation
Indices: 51383--51430 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
51373 ACAATAACTG
51383 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51431 TTCGGAACCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:51863 original size:13 final size:13
Alignment explanation
Indices: 51845--51872 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51835 TTTAGTATCG
51845 TACGTATTAATAT
1 TACGTATTAATAT
51858 TACGTATTAATAT
1 TACGTATTAATAT
51871 TA
1 TA
51873 AGAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
TACGTATTAATAT
Found at i:53678 original size:21 final size:21
Alignment explanation
Indices: 53654--53694 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53644 GATTATGAAT
53654 ATGAAGAA-ATATAATATTAAA
1 ATGAA-AATATATAATATTAAA
*
53675 ATGAAAATATATGATATTAA
1 ATGAAAATATATAATATTAA
53695 CACGAAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (21 bp):
ATGAAAATATATAATATTAAA
Found at i:55054 original size:144 final size:144
Alignment explanation
Indices: 54792--55065 Score: 494
Period size: 144 Copynumber: 1.9 Consensus size: 144
54782 ATGATCCTTC
*
54792 ATTTAGGTTTGTTTTACTTTTAATAATTATTGAGTTAAGGGGAAAATAGAACTAAATTATTGGGC
1 ATTTAGGTTTGTTTTACTTTTAATAATTATCGAGTTAAGGGGAAAATAGAACTAAATTATTGGGC
* *
54857 AAAAAGGTCAACTTTGAACGAGTCTTTATATACCAACCTTTGGATTGACATATGATCCTTCATTT
66 AAAAAGGTCAACTTTGAACGAGTCTTTATATAACAACCTTTGGATTGAAATATGATCCTTCATTT
54922 AGGTTAAAATGTCT
131 AGGTTAAAATGTCT
* *
54936 ATTTAGGTTTGTTTTGCTTTTAATAATTATCGAGTTAAGGGGAAAATATAACTAAATTATTGGGC
1 ATTTAGGTTTGTTTTACTTTTAATAATTATCGAGTTAAGGGGAAAATAGAACTAAATTATTGGGC
*
55001 AAAAAGGTCAACTTTGAGCGAGTCTTTATATAACAACCTTTGGATTGAAATATGATCCTTCATTT
66 AAAAAGGTCAACTTTGAACGAGTCTTTATATAACAACCTTTGGATTGAAATATGATCCTTCATTT
55066 TTAATAGTAT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 124 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (144 bp):
ATTTAGGTTTGTTTTACTTTTAATAATTATCGAGTTAAGGGGAAAATAGAACTAAATTATTGGGC
AAAAAGGTCAACTTTGAACGAGTCTTTATATAACAACCTTTGGATTGAAATATGATCCTTCATTT
AGGTTAAAATGTCT
Found at i:60837 original size:17 final size:18
Alignment explanation
Indices: 60798--60843 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
60788 TATTTCTAAG
*
60798 GGAATTGGAATCTGTGAA
1 GGAATTAGAATCTGTGAA
*
60816 GGAATTAGAATCTGT-CA
1 GGAATTAGAATCTGTGAA
60833 GGAATTAGAAT
1 GGAATTAGAAT
60844 TTGAATGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.37, C:0.07, G:0.28, T:0.28
Consensus pattern (18 bp):
GGAATTAGAATCTGTGAA
Found at i:63110 original size:17 final size:17
Alignment explanation
Indices: 63088--63122 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
63078 CCAATATCCC
63088 AAGCGGGTTAATTATTT
1 AAGCGGGTTAATTATTT
63105 AAGCGGGTTAATTATTT
1 AAGCGGGTTAATTATTT
63122 A
1 A
63123 GGGTATTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (17 bp):
AAGCGGGTTAATTATTT
Found at i:63325 original size:14 final size:14
Alignment explanation
Indices: 63266--63325 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
63256 TGACGAGTTC
*
63266 AATTAAAAATAATA
1 AATTAAAAAAAATA
*
63280 ATTATAAAAATAAAATA
1 A--ATTAAAA-AAAATA
**
63297 AATTAAAAAGTATA
1 AATTAAAAAAAATA
63311 AATTAAAAAAAATA
1 AATTAAAAAAAATA
63325 A
1 A
63326 GTAGAACTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 18 0.50
15 6 0.17
16 6 0.17
17 6 0.17
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AATTAAAAAAAATA
Found at i:64498 original size:15 final size:16
Alignment explanation
Indices: 64470--64503 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
64460 CAAAATTAGT
*
64470 ATATATAAAGTTAAAA
1 ATATATAAAATTAAAA
64486 ATAT-TAAAATTAAAA
1 ATATATAAAATTAAAA
64501 ATA
1 ATA
64504 AAAAAAACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
ATATATAAAATTAAAA
Found at i:65941 original size:18 final size:18
Alignment explanation
Indices: 65918--65963 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
65908 CAACATTCTC
*
65918 GGTAATCTTATTCCCGCA
1 GGTAATCTTATTCCCACA
* *
65936 GGTAATCCTATTCCCACT
1 GGTAATCTTATTCCCACA
65954 GGTAATCTTA
1 GGTAATCTTA
65964 CATTATGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (18 bp):
GGTAATCTTATTCCCACA
Found at i:69586 original size:30 final size:29
Alignment explanation
Indices: 69531--69587 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
69521 CTCCCTGAGC
*
69531 AATTAGGACCCCTATTTTTTCATCTTTAT
1 AATTAGGACCCCTATTTTTTAATCTTTAT
69560 AATTAGG-CCCCTAATTTTTTAAATCTTT
1 AATTAGGACCCCT-ATTTTTT-AATCTTT
69588 TTTTTTTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (29 bp):
AATTAGGACCCCTATTTTTTAATCTTTAT
Found at i:69836 original size:93 final size:92
Alignment explanation
Indices: 69672--69863 Score: 287
Period size: 93 Copynumber: 2.1 Consensus size: 92
69662 TTTTCAATCT
* * * *
69672 CTTTTTTTACCTTTATAATTGAGCCCCTAATTTTTTAATCTCATTTTTTAACTTTATAATTAAGG
1 CTTTTTCTACCTTTACAATTGAGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTAAGG
69737 CCCTTAAG-TTTCAATCTCACTTTCTA
66 CCCTTAAGTTTTCAATCTCACTTTCTA
*
69763 CCTTTTTCTACCTTTACAATTGATGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGA
1 -CTTTTTCTACCTTTACAATTGA-GCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTAA
*
69828 GGCTCTTAAGTTTTTTCAATCTCACTTTCTA
64 GGCCCTTAAG--TTTTCAATCTCACTTTCTA
69859 CTTTT
1 CTTTT
69864 ATAATTGAGA
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 20 0.22
93 47 0.52
95 5 0.06
96 18 0.20
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.49
Consensus pattern (92 bp):
CTTTTTCTACCTTTACAATTGAGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTAAGG
CCCTTAAGTTTTCAATCTCACTTTCTA
Found at i:69854 original size:44 final size:44
Alignment explanation
Indices: 69554--70019 Score: 384
Period size: 44 Copynumber: 10.6 Consensus size: 44
69544 ATTTTTTCAT
* ***
69554 CTTTATAATT-AGGCCCCTAA-TTTTTTAAATCTTTTTTTTTTAC
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATC-TCACTTTTTAC
* * * *
69597 CTTTACAATTGAGG-TCC-AA-TTTAATTCAATCTCACTTTTTAT
1 CTTTATAATTGAGGCCCCTAAGTTT-TTTCAATCTCACTTTTTAC
* * * **
69639 CTTTATAATTGAAGTCTCTAA-TTTTTTCAATCTCTTTTTTTAC
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
* *
69682 CTTTATAATTGA-GCCCCTAA-TTTTTT-AATCTCATTTTTTAA
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
* * * * *
69723 CTTTATAATTAAGGCCCTTAAGTTTCAATCTCACTTTCTACCTTTTTCTAC
1 CTTTATAATTGAGGCCCCTAAGTTT---TTTCAATCTC-A-C-TTTT-TAC
* * * *
69774 CTTTACAATTGATGCCCCTAA-TTTTTT-AATCCCACTTTTTAA
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
* * *
69816 CTTTATAATTGAGGCTCTTAAGTTTTTTCAATCTCACTTTCTAC
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
* * * *
69860 TTTTATAATTGAGACCCCTAAGTTTTTTTAATCTCAATTTTTAC
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
*
69904 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCGA--TTATAC
1 CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTC-ACTTTTTAC
* * *
69947 CTTTACAATTGAGGCCCCTAATTTTTTTTCAATCTC-CATTTCTAC
1 CTTTATAATTGAGGCCCCTAA-GTTTTTTCAATCTCAC-TTTTTAC
* * *
69992 CTTTATAATTAAGGCCTCTAATTTTTTT
1 CTTTATAATTGAGGCCCCTAAGTTTTTT
70020 TCCAATTTCT
Statistics
Matches: 342, Mismatches: 60, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.07
42 62 0.18
43 83 0.24
44 110 0.32
45 25 0.07
46 5 0.01
47 6 0.02
48 1 0.00
50 7 0.02
51 19 0.06
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (44 bp):
CTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTTTAC
Found at i:70838 original size:19 final size:18
Alignment explanation
Indices: 70804--70841 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
70794 CATTAAAAAT
*
70804 ATAAAAGAATAATAATAA
1 ATAAAAGAAAAATAATAA
70822 ATAAAAGAAAAAATAATAA
1 ATAAAAG-AAAAATAATAA
70841 A
1 A
70842 ATAATTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
ATAAAAGAAAAATAATAA
Found at i:71020 original size:27 final size:27
Alignment explanation
Indices: 70967--71020 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
70957 TATAAATTCC
** *
70967 AGTTTTACACGATAATTGTTTGGATAA
1 AGTTTTACACGATAATTGTAAGCATAA
70994 AGTTTTACACGATAATT-TAAAGCATAA
1 AGTTTTACACGATAATTGT-AAGCATAA
71021 TGTGCCGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (27 bp):
AGTTTTACACGATAATTGTAAGCATAA
Found at i:72491 original size:90 final size:91
Alignment explanation
Indices: 72376--72642 Score: 509
Period size: 92 Copynumber: 2.9 Consensus size: 91
72366 TTCGTCTATG
72376 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
1 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
72441 TGCATAGGGTGGTATGTGTG-TATAT
66 TGCATAGGGTGGTATGTGTGATATAT
72466 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
1 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
72531 TGCATAGGGTGGTATGTGTGTATATAT
66 TGCATAGGGTGGTATGTGTG-ATATAT
72558 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
1 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
*
72623 TGCATAGGGTGATATGTGTG
66 TGCATAGGGTGGTATGTGTG
72643 CGTGTGTATA
Statistics
Matches: 174, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
90 85 0.49
92 89 0.51
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (91 bp):
ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
TGCATAGGGTGGTATGTGTGATATAT
Found at i:72665 original size:92 final size:90
Alignment explanation
Indices: 72376--72666 Score: 474
Period size: 90 Copynumber: 3.2 Consensus size: 90
72366 TTCGTCTATG
**
72376 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
1 ATATATATATTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
72441 TGCATAGGGTGGTATGTGTGTATAT
66 TGCATAGGGTGGTATGTGTGTATAT
**
72466 ATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
1 ATATATATATTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
72531 TGCATAGGGTGGTATGTGTGTATAT
66 TGCATAGGGTGGTATGTGTGTATAT
72556 ATATATATACCTTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAA
1 ATATATATA--TTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAA
* * *
72621 TTTGCATAGGGTGATATGTGTGCGTGTGT
64 TTTGCATAGGGTGGTATGTGT--GTATAT
*
72650 ATATATATATAACATGA
1 ATATATATATTACATGA
72667 TCATGGTACG
Statistics
Matches: 191, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
90 97 0.51
92 81 0.42
94 13 0.07
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (90 bp):
ATATATATATTACATGAACAGGTAATATACGATACATCTAAAGTCTAATGCCCAAATATGTAATT
TGCATAGGGTGGTATGTGTGTATAT
Found at i:72755 original size:3 final size:3
Alignment explanation
Indices: 72743--72772 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
72733 AAGTACAATG
72743 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
72773 GTTATATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:73037 original size:2 final size:2
Alignment explanation
Indices: 73020--73058 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
73010 ACGTGTATTC
*
73020 AT AT CAT AT TT 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
73059 TATTTAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:80516 original size:42 final size:42
Alignment explanation
Indices: 80462--80552 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
80452 AAAATGAAAC
* *
80462 TTTAGCGGCGTTTTTTCAACAAACGCCGCAATAGGGTGGTAA
1 TTTAGCGACGTTTTTTCAACAAACGCCACAATAGGGTGGTAA
80504 TTTAGCGACGTTTTTTCAACAAACGCCACAATAGGGTGGTAA
1 TTTAGCGACGTTTTTTCAACAAACGCCACAATAGGGTGGTAA
80546 TTTAGCG
1 TTTAGCG
80553 GTGTTTATAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (42 bp):
TTTAGCGACGTTTTTTCAACAAACGCCACAATAGGGTGGTAA
Found at i:80692 original size:40 final size:40
Alignment explanation
Indices: 80566--80698 Score: 119
Period size: 41 Copynumber: 3.3 Consensus size: 40
80556 TTTATAGCTC
* *
80566 AAACGTCGGAATATAGTTGTTTATAGTGGCGTTTT-CTAAAA
1 AAACGCCGCAATATAGTTGTTTATAGTGGCGTTTTAC--AAA
* * * * * *
80607 AAACACCGCAATAGAGTAGTAATT-TAGCGGCGTTTTTA-TAT
1 AAACGCCGCAATATAGTTGT--TTATAGTGGCG-TTTTACAAA
*
80648 AAACGCCGCAATATAGTTGTTTATAGTGGCGTTTTACAAG
1 AAACGCCGCAATATAGTTGTTTATAGTGGCGTTTTACAAA
80688 AAACGCCGCAA
1 AAACGCCGCAA
80699 ATGGGTCGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
39 7 0.10
40 19 0.26
41 33 0.46
42 7 0.10
43 6 0.08
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGCCGCAATATAGTTGTTTATAGTGGCGTTTTACAAA
Found at i:82759 original size:21 final size:21
Alignment explanation
Indices: 82733--82774 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
82723 ACCGGTAAAG
82733 AACC-GGAAGAATCGGGCTGAA
1 AACCGGGAA-AATCGGGCTGAA
*
82754 AACCGGGAAAATCGGGGTGAA
1 AACCGGGAAAATCGGGCTGAA
82775 CCGACTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.17, G:0.36, T:0.10
Consensus pattern (21 bp):
AACCGGGAAAATCGGGCTGAA
Found at i:82805 original size:30 final size:30
Alignment explanation
Indices: 82749--82807 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
82739 AAGAATCGGG
* *
82749 CTGAAAACCGGGAAAATCGGGGTGAACCGA
1 CTGAAAACCGGCAAAACCGGGGTGAACCGA
**
82779 CTGAAAACCGGCAAAACCGGTTTGAACCG
1 CTGAAAACCGGCAAAACCGGGGTGAACCG
82808 CCGGTTCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.29, T:0.12
Consensus pattern (30 bp):
CTGAAAACCGGCAAAACCGGGGTGAACCGA
Found at i:83605 original size:8 final size:8
Alignment explanation
Indices: 83592--83616 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
83582 TGAACCCGGT
83592 TGAACCAG
1 TGAACCAG
83600 TGAACCAG
1 TGAACCAG
83608 TGAACCAG
1 TGAACCAG
83616 T
1 T
83617 ACCTTCACCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (8 bp):
TGAACCAG
Found at i:89960 original size:21 final size:21
Alignment explanation
Indices: 89934--90065 Score: 113
Period size: 21 Copynumber: 6.3 Consensus size: 21
89924 AGCGGAAAAT
89934 GAAGCAAG-GGAAGCAGAGAGA
1 GAAGC-AGCGGAAGCAGAGAGA
* **
89955 GCAGCAGCGGAAGCAGCTAGA
1 GAAGCAGCGGAAGCAGAGAGA
* *
89976 GTAGCAGCGGAAGCACAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
* * * *
89997 GAAGCAGTGGCAGCACACAGA
1 GAAGCAGCGGAAGCAGAGAGA
* * * *
90018 GAGGTAGCGGTAGCACAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
* *
90039 GAAGCAGCGGCAGCACAGAGA
1 GAAGCAGCGGAAGCAGAGAGA
90060 GAAGCA
1 GAAGCA
90066 ATATATCAGC
Statistics
Matches: 91, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 2 0.02
21 89 0.98
ACGTcount: A:0.39, C:0.19, G:0.39, T:0.04
Consensus pattern (21 bp):
GAAGCAGCGGAAGCAGAGAGA
Found at i:90003 original size:42 final size:42
Alignment explanation
Indices: 89942--90061 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
89932 ATGAAGCAAG
* * * *
89942 GGAAGCAGAGAGAGCAGCAGCGGAAGCAGC-TAGAGTA-GCAGC
1 GGAAGCACAGAGAGAAGCAGCGGCAGCA-CACAGAG-AGGCAGC
* *
89984 GGAAGCACAGAGAGAAGCAGTGGCAGCACACAGAGAGGTAGC
1 GGAAGCACAGAGAGAAGCAGCGGCAGCACACAGAGAGGCAGC
* *
90026 GGTAGCACAGAGAGAAGCAGCGGCAGCACAGAGAGA
1 GGAAGCACAGAGAGAAGCAGCGGCAGCACACAGAGA
90062 AGCAATATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 65 0.97
ACGTcount: A:0.38, C:0.19, G:0.39, T:0.04
Consensus pattern (42 bp):
GGAAGCACAGAGAGAAGCAGCGGCAGCACACAGAGAGGCAGC
Found at i:90548 original size:43 final size:43
Alignment explanation
Indices: 90511--90592 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
90501 GTTTGTGGGA
*
90511 AAAACGCCGGTAAAAATCAACACCTACTGCGACGTTTGTGAAG
1 AAAACGCCGCTAAAAATCAACACCTACTGCGACGTTTGTGAAG
* * *
90554 AAAACGCCGCTAAACATCAACACCTATTGCGGCGTTTGT
1 AAAACGCCGCTAAAAATCAACACCTACTGCGACGTTTGT
90593 TTGCCAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (43 bp):
AAAACGCCGCTAAAAATCAACACCTACTGCGACGTTTGTGAAG
Found at i:90606 original size:43 final size:44
Alignment explanation
Indices: 90555--90679 Score: 173
Period size: 43 Copynumber: 2.9 Consensus size: 44
90545 TTTGTGAAGA
* * *
90555 AAACGCCGCTAAACATCAACACCTATTGCGGCGTTTGTT-TGCC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTTCTACC
*
90598 AAATGCCGCTAAATATCAATACCTATTGCGGCGTTT-TTCTACC
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTTCTACC
* * *
90641 AAGCGCCGCTAAATATCAATACCTTTTGCGACGTTTGTT
1 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTT
90680 ATGTTGTCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 2 0.03
43 68 0.94
44 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (44 bp):
AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTGTTCTACC
Found at i:90616 original size:86 final size:86
Alignment explanation
Indices: 90516--90679 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 86
90506 TGGGAAAAAC
* * *
90516 GCCGGTAAAAATCAACACCTACTGCGACGTTTGTGAAGAAAACGCCGCTAAACATCAACACCTAT
1 GCCGCTAAAAATCAACACCTACTGCGACGTTTGTCAACAAAACGCCGCTAAACATCAACACCTAT
*
90581 TGCGGCGTTTGTTTGCCAAAT
66 TGCGACGTTTGTTTGCCAAAT
* * * * * * * * * * *
90602 GCCGCTAAATATCAATACCTATTGCGGCGTTTTTCTACCAAGCGCCGCTAAATATCAATACCTTT
1 GCCGCTAAAAATCAACACCTACTGCGACGTTTGTCAACAAAACGCCGCTAAACATCAACACCTAT
90667 TGCGACGTTTGTT
66 TGCGACGTTTGTT
90680 ATGTTGTCAC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
86 63 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (86 bp):
GCCGCTAAAAATCAACACCTACTGCGACGTTTGTCAACAAAACGCCGCTAAACATCAACACCTAT
TGCGACGTTTGTTTGCCAAAT
Found at i:90702 original size:27 final size:25
Alignment explanation
Indices: 90661--90710 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
90651 AAATATCAAT
*
90661 ACCTTTTGCGACGTTTGTTATGTTGTC
1 ACCTATTGCGACGTTT-TT-TGTTGTC
*
90688 ACCTATTGCGGCGTTTTTTGTTG
1 ACCTATTGCGACGTTTTTTGTTG
90711 AAAACGCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 2 0.10
27 14 0.67
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (25 bp):
ACCTATTGCGACGTTTTTTGTTGTC
Found at i:105722 original size:27 final size:27
Alignment explanation
Indices: 105699--105768 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
105689 CACTTCTTGT
105699 AGCGTTTCCCAAACTTTCCCTTCTTCC
1 AGCGTTTCCCAAACTTTCCCTTCTTCC
105726 AGCGTTTCCCAAACTTTCCCTTCTTCC
1 AGCGTTTCCCAAACTTTCCCTTCTTCC
105753 AGCGTTTCCCAAACTT
1 AGCGTTTCCCAAACTT
105769 CCCGTGCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.17, C:0.39, G:0.09, T:0.36
Consensus pattern (27 bp):
AGCGTTTCCCAAACTTTCCCTTCTTCC
Found at i:107078 original size:23 final size:23
Alignment explanation
Indices: 107052--107096 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
107042 CACCACAGCT
*
107052 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
107075 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
107097 ATATAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:107314 original size:149 final size:149
Alignment explanation
Indices: 107064--107378 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
107054 TATAATTGCA
107064 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
*
107128 TTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTT
* *
107193 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
107213 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
107278 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTC
*
107343 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
107362 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
107379 CCCTCGACTC
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTCCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:108304 original size:23 final size:23
Alignment explanation
Indices: 108278--108322 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
108268 CACCACAGCT
*
108278 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
108301 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
108323 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:108560 original size:149 final size:149
Alignment explanation
Indices: 108301--108753 Score: 852
Period size: 149 Copynumber: 3.0 Consensus size: 149
108291 CGAAGTGCCC
* * *
108301 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAAAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
108366 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
*
108431 CATATGTCCCGAAGAACCG
131 CATATGTCTCGAAGAACCG
*
108450 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTTTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
108515 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
108580 CATATGTCTCGAAGAACCG
131 CATATGTCTCGAAGAACCG
108599 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
108664 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
108729 CATATGTCTCGAAGAACCG
131 CATATGTCTCGAAGAACCG
108748 CGTAGA
1 CGTAGA
108754 CCCTCGACTC
Statistics
Matches: 297, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 297 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
CATATGTCTCGAAGAACCG
Found at i:108916 original size:31 final size:30
Alignment explanation
Indices: 108859--108916 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
108849 TAATTCACTT
* **
108859 TCACATATCACATAGCTTCTTTTCATATTA
1 TCACATATCACATAGCTTATAATCATATTA
*
108889 TCACATAGTCACGTAGCTTATAATCATA
1 TCACATA-TCACATAGCTTATAATCATA
108917 GGTTTTGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 7 0.30
31 16 0.70
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (30 bp):
TCACATATCACATAGCTTATAATCATATTA
Found at i:109474 original size:18 final size:18
Alignment explanation
Indices: 109453--109487 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
109443 TCCCATCTAG
109453 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
109471 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
109488 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:110098 original size:21 final size:21
Alignment explanation
Indices: 110068--110112 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
110058 ATTTTGTCGT
* *
110068 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
110089 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
110110 TTG
1 TTG
110113 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:113266 original size:22 final size:22
Alignment explanation
Indices: 113241--113284 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
113231 CACCACAGCT
*
113241 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
* *
113263 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
113285 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:113540 original size:149 final size:148
Alignment explanation
Indices: 113263--113711 Score: 832
Period size: 149 Copynumber: 3.0 Consensus size: 148
113253 CCGAAGTGCC
* *
113263 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
113328 A-ATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATAC
66 ATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATAC
*
113392 ATATGTCCCGAAGAACCG
131 ATATGTCTCGAAGAACCG
113410 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
113475 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 -ATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
113540 CATATGTCTCGAAGAACCG
130 CATATGTCTCGAAGAACCG
113559 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
113624 AATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTT--CACATGTTCCAAAGAATATA
66 -ATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
113687 CATATGTCTCGAAGAACCG
130 CATATGTCTCGAAGAACCG
113706 CGTAGA
1 CGTAGA
113712 CCCTCGACTC
Statistics
Matches: 296, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
147 108 0.36
148 1 0.00
149 187 0.63
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
ATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATAC
ATATGTCTCGAAGAACCG
Found at i:113874 original size:31 final size:30
Alignment explanation
Indices: 113817--113874 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
113807 TAATTCACTT
* **
113817 TCACATATCACATAGCTTCTTTTCATATTA
1 TCACATATCACATAGCTTATAATCATATTA
*
113847 TCACATAGTCACGTAGCTTATAATCATA
1 TCACATA-TCACATAGCTTATAATCATA
113875 GGTTTTGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 7 0.30
31 16 0.70
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (30 bp):
TCACATATCACATAGCTTATAATCATATTA
Found at i:114429 original size:18 final size:18
Alignment explanation
Indices: 114408--114442 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
114398 TCCCATCTAG
114408 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
114426 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
114443 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:115049 original size:21 final size:21
Alignment explanation
Indices: 115019--115063 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
115009 ATTTTGTCGT
* *
115019 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
115040 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
115061 TTG
1 TTG
115064 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:116957 original size:21 final size:21
Alignment explanation
Indices: 116933--116977 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
116923 TGTTGTTCGT
* *
116933 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
116954 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
116975 TTG
1 TTG
116978 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:118145 original size:27 final size:27
Alignment explanation
Indices: 118122--118191 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
118112 CACTTCTTGT
118122 AGCGTTTCCCAAACTTTCCCTTCTTCC
1 AGCGTTTCCCAAACTTTCCCTTCTTCC
118149 AGCGTTTCCCAAACTTTCCCTTCTTCC
1 AGCGTTTCCCAAACTTTCCCTTCTTCC
118176 AGCGTTTCCCAAACTT
1 AGCGTTTCCCAAACTT
118192 CCCGTGCTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.17, C:0.39, G:0.09, T:0.36
Consensus pattern (27 bp):
AGCGTTTCCCAAACTTTCCCTTCTTCC
Found at i:120928 original size:378 final size:376
Alignment explanation
Indices: 120251--120989 Score: 877
Period size: 378 Copynumber: 2.0 Consensus size: 376
120241 TATTAGATAG
* * * ** * *
120251 CTCAGCAGGATTAGATTTGTGGCCTTGTTGAAATGCGTTATGTATATCCTCTTGATATCTCACCT
1 CTCAGCAGGATTAGATTTGTGGCCTTGTTAAAAAGCATTATGTATATCCTCCAGAGATCTCACAT
* *
120316 CGACAACAGGTAATACTGAATTCGTATCTGTATGACCCTGCTGATTCTCAATCATACTTGGAAGA
66 CGACAACAGGTAATACTGAATTCGTATCTGCATGACCCTGCTGATTCTCAATCATACTAGGAAGA
*
120381 ATTACTTCCTCCACATCTACCCCTTCATGAAGTTGCTTAAAAACCAAATCAATGCCTTCAACTGA
131 ATTACTTCCTCAACATCTACCCCTTCATGAAGTTGCTTAAAAACCAAATCAATGCCTTCAACTGA
* * * * *
120446 TTTTGCTTCAAGAACAGGTAGTGCCGCCTTGGTCTCCATCTCTATTTCTTCTGTATCTTCATATC
196 TCTTGCTTCAAGAACAGGCAGTGCCACCTTGGTCTCCATCTCTATTTCTTCTGTATCATCAAATC
* * * * *
120511 CATCTTTCAGTTCACCAGCAGTATTCTCGTTTGTTTCTTGAATACCTGAGACGGAATTACTACCA
261 CATCTTTCAGTTCACCAGCAGTATTCACGTATGTTTCTTGAATACCAGAGACGCAATGACTACCA
120576 TCAATCTGCTTC-GTAGAAACCACATCATGATCTGCTCCTGTTGAATGTAGCAA
326 TCAATCT-CTTCAGTAGAAACCACATCATG-T-TGCTCCTGTTGAATGTAGCAA
* * **
120629 CTCAGCTGGATTAGATTTG-GTGCCTTGTTAAAAAGCATTATGTATGTCCTCCAGAGATCTTGCA
1 CTCAGCAGGATTAGATTTGTG-GCCTTGTTAAAAAGCATTATGTATATCCTCCAGAGATCTCACA
* * *
120693 TCGACAACAGGTAA-ATCTGAATTGGTATCTGCATGACCCTGGTGATTCTCAATCATGCTAGGAA
65 TCGACAACAGGTAATA-CTGAATTCGTATCTGCATGACCCTGCTGATTCTCAATCATACTAGGAA
* * * *
120757 GAATTACTTCCTCAACATCTACTCCTTCATGGAGTTGCTTAAAAGCCAAATCAATGTCTTTCAA-
129 GAATTACTTCCTCAACATCTACCCCTTCATGAAGTTGCTTAAAAACCAAATCAATG-CCTTCAAC
** ** *
120821 TGATCTTGCTTCAAGAACAGGCAGCT-CCATGTTGGTCTCTGTCT-TCATTTCTTC-GATTTCAT
193 TGATCTTGCTTCAAGAACAGGCAG-TGCCACCTTGGTCTCCATCTCT-ATTTCTTCTG-TATCAT
* ** * ** * *
120883 CAAAGT-CATTTTTTGGTTCGCTGGCAGTGTTCA-GACTAT-TTTCTTGAATACCAGAGACGCCA
255 CAAA-TCCATCTTTCAGTTCACCAGCAGTATTCACG--TATGTTTCTTGAATACCAGAGACGCAA
* * *
120945 TGACTAGCTTCAATCTCTTCATTAGAAACCACATCATGTTGCTCC
317 TGACTACCATCAATCTCTTCAGTAGAAACCACATCATGTTGCTCC
120990 ATGTCTGCTG
Statistics
Matches: 304, Mismatches: 47, Indels: 22
0.82 0.13 0.06
Matches are distributed among these distances:
376 6 0.02
377 10 0.03
378 278 0.91
379 10 0.03
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (376 bp):
CTCAGCAGGATTAGATTTGTGGCCTTGTTAAAAAGCATTATGTATATCCTCCAGAGATCTCACAT
CGACAACAGGTAATACTGAATTCGTATCTGCATGACCCTGCTGATTCTCAATCATACTAGGAAGA
ATTACTTCCTCAACATCTACCCCTTCATGAAGTTGCTTAAAAACCAAATCAATGCCTTCAACTGA
TCTTGCTTCAAGAACAGGCAGTGCCACCTTGGTCTCCATCTCTATTTCTTCTGTATCATCAAATC
CATCTTTCAGTTCACCAGCAGTATTCACGTATGTTTCTTGAATACCAGAGACGCAATGACTACCA
TCAATCTCTTCAGTAGAAACCACATCATGTTGCTCCTGTTGAATGTAGCAA
Found at i:122049 original size:399 final size:392
Alignment explanation
Indices: 120629--122049 Score: 1251
Period size: 399 Copynumber: 3.6 Consensus size: 392
120619 AATGTAGCAA
* ** * *
120629 CTCAGCTGGATTAGATT-TGGTGCCTTGTTAAAAAGCATTATGTATGTCCTCCAGAGATCTTGCA
1 CTCAGCTGGATTAGGTTCT-GT-CCTTGTTGGAAAGCATTATGTATATCCTCCAGAGATCTTGCC
* * * *
120693 TCGACAACAGGTAAATCTGAATTGGTATCTGCATGACCCTGG-TGATTCTCAATCATGCTAGGAA
64 TCGACAACAGGTAAATCTG-AGTGGTATCTGCATGATCC-GGCTGATTCTCAATCATACTTGGAA
* * * *
120757 GAATTACTTCCTCAACATCTACTCCTTCATGGAGTTGCTTAAAAGCCAAATCAATGTCTTTCAAT
127 GAATTACTTCCTCAACATCCACTACTTCATGAAGTTGCTTAAAAGCCAAATCAATATC-TTCAAT
** *
120822 GATCTTGCTTCAAGAACAGGCAGCTCCATGTTGGTCTCT-GTCTTCATTTCTTC-GATTTCATCA
191 GATCTTGCTTCAAGAACAGGCAGCTCCACATTGGTCTCTCGT-TTC--TTCTTCTG-TTTCTTC-
* * *
120885 AAGTCATTTTTTGGTTC-GCTG-GCAGTGTTCAGACTATTTTCTTGAATACCAGAGACGCCA-TG
251 AAGTCATTTTTTGGTTCAACAGAGCA-T-TTCATA--ATTTTCTTGAATACCAGAGA-GCCATTG
* * * * *
120947 ACTAGCTTCAATCTCTTCATTAGAAACCACATCATGTTGCTCCA-TGTCTGCTGATCCATT-TCT
311 -CTAACTTCAATCTCTTCAGTAGAAACTACATCATGCTGCTCTACT-TCTG-TGATCCATTCT-T
* * * *
121010 CAAGTCAGCGGAA-AGAGGCAG
372 CAAGTCTG-TGAACTGTGGCAG
* * * * * * *
121031 CTCCGCTGGTTTAGGTTCTGGGCATTTTTGGAAAGCATTATGTAGATCCTCCAGAGATCATGCCT
1 CTCAGCTGGATTAGGTTCT-GTCCTTGTTGGAAAGCATTATGTATATCCTCCAGAGATCTTGCCT
* * * * * * ** *
121096 CGACAACTGGTAATTATGGAGTGAG-ATCTGCATGATCCGACCGATTCTCAATCGTGGTTGTAAG
65 CGACAACAGGTAAATCT-GAGTG-GTATCTGCATGATCCGGCTGATTCTCAATCATACTTGGAAG
* * * **
121160 AATTACTTCCTCAGCATCAAC-ACCGTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCC
128 AATTACTTCCTCAACATCCACTA-CTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCA-AT
* * * * * * * * *
121224 AATCTTGCTTCACGAACAGACTGCTCGACATTGG----TCG--ACATC-TCTATTTCTTCATATT
191 GATCTTGCTTCAAGAACAGGCAGCTCCACATTGGTCTCTCGTTTCTTCTTCTGTTTCTTCA-AGT
* * * * ** *
121282 CATTTTTTGATTCAACAGCAGC-TTTC-TCATTTTCTTGAAAACCAGA-AACCAACTCACCAACT
255 CATTTTTTGGTTCAACAG-AGCATTTCATAATTTTCTTGAATACCAGAGAGCC-A-TTGCTAACT
* * * * * *
121344 TCAATCTCTTCAGTGGAAACCT-CATCATGCTGTTCTACTTCTGTCAACTCATTCCTCAAGT-TT
317 TCAATCTCTTCAGTAGAAA-CTACATCATGCTGCTCTACTTCTGTGATC-CATTCTTCAAGTCTG
* *
121407 TTAGACTGTAGCAG
380 TGA-ACTGTGGCAG
* * * * * *
121421 CTCAACTGGATTAAGTTCTGGTCCTTTTTGGAGAGCATTATGTATATCCTCCAAAGATTTTGCCT
1 CTCAGCTGGATTAGGTTCT-GTCCTTGTTGGAAAGCATTATGTATATCCTCCAGAGATCTTGCCT
* * **
121486 CGACAAC-GGATAATTCTGAGGTGGGATCTGCATGATCCATCTGATTCTCAATCATACTTGGAAG
65 CGACAACAGG-TAAATCTGA-GTGGTATCTGCATGATCCGGCTGATTCTCAATCATACTTGGAAG
* *
121550 AATTACTTCCTCAACATCCACTCCTCCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAATCG
128 AATTACTTCCTCAACATCCACTACTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAAT-G
* *
121615 ATCTTGCTTCAAGAACATGTAGCTCCA-AGTTGGTCTCTGCGTTTCGTTCTTCTGTTTCTTC-A-
192 ATCTTGCTTCAAGAACAGGCAGCTCCACA-TTGGTCTCT-CGTTTC-TTCTTCTGTTTCTTCAAG
** * * * *
121677 TCATTTTCAGGTTCACCAGAAGCATTATCATAACTTTCTTGAATATCAGAGATGGCATTGCTAAC
254 TCATTTTTTGGTTCAACAG-AGCATT-TCATAATTTTCTTGAATACCAGAGA-GCCATTGCTAAC
** * * *
121742 TTCAATCTCTTTGGAAGAAACTACAACATGCTGCTCTACTTCTGATGATCCGTTCTTCAAGTCTG
316 TTCAATCTCTTCAGTAGAAACTACATCATGCTGCTCTACTTCTG-TGATCCATTCTTCAAGTCTG
*
121807 TGAACTGTGGCGG
380 TGAACTGTGGCAG
* * * *
121820 CTGAGCTGGATTAGGTTCTTTACCTTGTTGCAAAGCATTATGTATATCCTCCAGAGATCTCGCCT
1 CTCAGCTGGATTAGGTTCTGT-CCTTGTTGGAAAGCATTATGTATATCCTCCAGAGATCTTGCCT
* * *
121885 CGACAACAGTTAAATCCGACTTGGTATCTGCATGATCCGGCTGATTCTCAATCATACTTGGAAGA
65 CGACAACAGGTAAATCTGA-GTGGTATCTGCATGATCCGGCTGATTCTCAATCATACTTGGAAGA
* *
121950 ATTACTTCCTCAACATCCACTACTTCATGAAGTTGCTTAAAAGCTAAATCAATATCTTCTACTGA
129 ATTACTTCCTCAACATCCACTACTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTC-AATGA
*
122015 TCTTGCTTCAAGAACAGGCAGTTCCACATTGGTCT
193 TCTTGCTTCAAGAACAGGCAGCTCCACATTGGTCT
122050 TGTTTTCAAT
Statistics
Matches: 812, Mismatches: 159, Indels: 99
0.76 0.15 0.09
Matches are distributed among these distances:
388 3 0.00
389 12 0.01
390 251 0.31
391 2 0.00
392 1 0.00
393 25 0.03
394 6 0.01
395 2 0.00
396 21 0.03
397 4 0.00
398 8 0.01
399 281 0.35
400 12 0.01
401 6 0.01
402 173 0.21
403 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (392 bp):
CTCAGCTGGATTAGGTTCTGTCCTTGTTGGAAAGCATTATGTATATCCTCCAGAGATCTTGCCTC
GACAACAGGTAAATCTGAGTGGTATCTGCATGATCCGGCTGATTCTCAATCATACTTGGAAGAAT
TACTTCCTCAACATCCACTACTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAATGATCT
TGCTTCAAGAACAGGCAGCTCCACATTGGTCTCTCGTTTCTTCTTCTGTTTCTTCAAGTCATTTT
TTGGTTCAACAGAGCATTTCATAATTTTCTTGAATACCAGAGAGCCATTGCTAACTTCAATCTCT
TCAGTAGAAACTACATCATGCTGCTCTACTTCTGTGATCCATTCTTCAAGTCTGTGAACTGTGGC
AG
Found at i:129210 original size:3 final size:3
Alignment explanation
Indices: 129202--129230 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
129192 ACTCTTTGTA
129202 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
129231 AGTTTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:142829 original size:66 final size:67
Alignment explanation
Indices: 142737--142885 Score: 282
Period size: 66 Copynumber: 2.2 Consensus size: 67
142727 TGTTGCCTGA
142737 TCTTTAAGAAATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCT
1 TCTTTAAGAAATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCT
142802 GG
66 GG
142804 TCTTTAAG-AATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCT
1 TCTTTAAGAAATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCT
142868 GG
66 GG
142870 TCTGTTAAGAAATGAA
1 TCT-TTAAGAAATGAA
142886 GTTGCAAAGT
Statistics
Matches: 80, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
66 61 0.76
67 13 0.16
68 6 0.08
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (67 bp):
TCTTTAAGAAATGAACTGTTCATAGTTGTTTCTCTATAATATAATTAGCCTTTGCAAGCAATGCT
GG
Found at i:146249 original size:16 final size:17
Alignment explanation
Indices: 146230--146262 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
146220 GAACCTTTGA
146230 GAAA-TCCTAAAATTTT
1 GAAACTCCTAAAATTTT
*
146246 GAAACTCCTATAATTTT
1 GAAACTCCTAAAATTTT
146263 TCCTTCAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (17 bp):
GAAACTCCTAAAATTTT
Done.