Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005322.1 Hibiscus syriacus cultivar Beakdansim tig00012045_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: 59363
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Found at i:6173 original size:13 final size:13
Alignment explanation
Indices: 6155--6191 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
6145 CACTTAAATA
6155 GGGTTTAGAGCTC
1 GGGTTTAGAGCTC
6168 GGGTTTAGAGCTC
1 GGGTTTAGAGCTC
6181 GGGTTTAGAGC
1 GGGTTTAGAGC
6192 CTTAAGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.41, T:0.30
Consensus pattern (13 bp):
GGGTTTAGAGCTC
Found at i:6926 original size:2 final size:2
Alignment explanation
Indices: 6919--7002 Score: 105
Period size: 2 Copynumber: 41.5 Consensus size: 2
6909 ATAAAAAGTA
* * * *
6919 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AA AA AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
6961 AT AA AA AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7003 AAACAGATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
2 72 0.97
3 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7622 original size:35 final size:36
Alignment explanation
Indices: 7576--7680 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 36
7566 ATGCTTGTGG
*
7576 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAA-CT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACCT
*
7611 ATCCTATTTTTAGGAGTTTAAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAAC-CT
* *
7648 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAA
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAA
7681 TTCTAACGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 31 0.49
37 32 0.51
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACCT
Found at i:10048 original size:29 final size:28
Alignment explanation
Indices: 9955--10053 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
9945 TGAGGGTCAC
*
9955 TTTTTTT-AAAAATTTGATTGAGAATTA
1 TTTTTTTAAAAAATTTGATTGGGAATTA
9982 TTTTTTTAAAAAA-TTGATTGGGAATTA
1 TTTTTTTAAAAAATTTGATTGGGAATTA
** * *
10009 TTTTTCCAAAAAATGTTGTTTGGGAGTTA
1 TTTTTTTAAAAAAT-TTGATTGGGAATTA
10038 TTTTTTTAAAATAATT
1 TTTTTTTAAAA-AATT
10054 AATTACCGGG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
27 31 0.51
28 5 0.08
29 22 0.36
30 3 0.05
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTTTTAAAAAATTTGATTGGGAATTA
Found at i:12310 original size:14 final size:14
Alignment explanation
Indices: 12291--12318 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12281 ATACTTCAAA
12291 TGGAAAATGGAGAT
1 TGGAAAATGGAGAT
12305 TGGAAAATGGAGAT
1 TGGAAAATGGAGAT
12319 GAATTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (14 bp):
TGGAAAATGGAGAT
Found at i:13445 original size:31 final size:31
Alignment explanation
Indices: 13407--13476 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
13397 TAAGGAGAAA
* *
13407 TAGTCCCTAACGTTATCGATCCG-TCCTATTT
1 TAGTCCCTAACATTATCGATCCGCT-CGATTT
*
13438 TAGTCCCTAACATTATCGGTCCGCTCGATTT
1 TAGTCCCTAACATTATCGATCCGCTCGATTT
13469 TAGTCCCT
1 TAGTCCCT
13477 CAGCCGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (31 bp):
TAGTCCCTAACATTATCGATCCGCTCGATTT
Found at i:14206 original size:73 final size:74
Alignment explanation
Indices: 14046--14199 Score: 202
Period size: 73 Copynumber: 2.1 Consensus size: 74
14036 TTTAAATAAG
* * *
14046 GAGGTACCGATACCCTTATGTTGATTTTGGGCTCTGAGAAAAACAAAATACCAAACAGGTACCGA
1 GAGGTACCGATACCCTTATGATAATTTTGGGCTCCGAGAAAAACAAAATACCAAACAGGTACCGA
14111 TACCCCCCA
66 TACCCCCCA
* * * * * **
14120 TAGGTACCGATACCCTTGTGATAATTTT-GGCTCCGAGAAAAACAGAATGCCCAATGGGTACCGA
1 GAGGTACCGATACCCTTATGATAATTTTGGGCTCCGAGAAAAACAAAATACCAAACAGGTACCGA
*
14184 TACCCCCTA
66 TACCCCCCA
14193 GAGGTAC
1 GAGGTAC
14200 ATATACCTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
73 44 0.65
74 24 0.35
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (74 bp):
GAGGTACCGATACCCTTATGATAATTTTGGGCTCCGAGAAAAACAAAATACCAAACAGGTACCGA
TACCCCCCA
Found at i:15510 original size:23 final size:23
Alignment explanation
Indices: 15480--15527 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15470 TGTGAGGAAG
15480 TTAGTTTTCTCTCTTCCAAAAGC
1 TTAGTTTTCTCTCTTCCAAAAGC
15503 TTAGTTTTCTCTCTTCCAAAAGC
1 TTAGTTTTCTCTCTTCCAAAAGC
15526 TT
1 TT
15528 GGCAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.08, T:0.46
Consensus pattern (23 bp):
TTAGTTTTCTCTCTTCCAAAAGC
Found at i:19980 original size:20 final size:21
Alignment explanation
Indices: 19935--20035 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
19925 TTTGTGCACC
* **
19935 AGGTATTGATACCCCTTTTTT
1 AGGTATCGATACCCCTTTGCT
19956 AGGTATCGATACCCC-TTGCT
1 AGGTATCGATACCCCTTTGCT
** *
19976 AGGTATCGATACTTC-TT-CA
1 AGGTATCGATACCCCTTTGCT
*
19995 ACGTGTATCGATACCCTCTTTGAAT
1 A-G-GTATCGATACCC-CTTTG-CT
*
20020 ATGTATCGATACCCCT
1 AGGTATCGATACCCCT
20036 ATAAGGGTAC
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.03
20 19 0.30
21 24 0.38
22 3 0.05
23 14 0.22
25 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (21 bp):
AGGTATCGATACCCCTTTGCT
Found at i:24684 original size:21 final size:21
Alignment explanation
Indices: 24633--24717 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
24623 ATCTCGTAAT
** *
24633 TTGCACCGAAGTCCCACATAA
1 TTGCACCGAAGAACCACATAG
*
24654 TTGTC-TCGAAGAACCACATAG
1 TTG-CACCGAAGAACCACATAG
24675 TTGCACCGAA-ATACCACATAGG
1 TTGCACCGAAGA-ACCACATA-G
**
24697 TTTGCACCGAAGTGCCACATA
1 -TTGCACCGAAGAACCACATA
24718 TTTGTCTCGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.04
21 30 0.59
22 2 0.04
23 17 0.33
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (21 bp):
TTGCACCGAAGAACCACATAG
Found at i:24705 original size:23 final size:21
Alignment explanation
Indices: 24666--24717 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 21
24656 GTCTCGAAGA
24666 ACCACATAGTTGCACCGAAAT
1 ACCACATAGTTGCACCGAAAT
*
24687 ACCACATAGGTTTGCACCGAAGT
1 ACCACATA-G-TTGCACCGAAAT
*
24710 GCCACATA
1 ACCACATA
24718 TTTGTCTCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
22 1 0.04
23 18 0.67
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (21 bp):
ACCACATAGTTGCACCGAAAT
Found at i:24752 original size:21 final size:21
Alignment explanation
Indices: 24728--24781 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
24718 TTTGTCTCGG
24728 AGGACCACATAATTATCCCGA
1 AGGACCACATAATTATCCCGA
*
24749 AGGATCACATAATTATCCCGA
1 AGGACCACATAATTATCCCGA
*
24770 ATGACCACATAA
1 AGGACCACATAA
24782 AACCCTCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (21 bp):
AGGACCACATAATTATCCCGA
Found at i:31427 original size:870 final size:870
Alignment explanation
Indices: 29744--33226 Score: 6151
Period size: 870 Copynumber: 4.0 Consensus size: 870
29734 TATTTTCCTC
** * * *
29744 TCATAGGAGCAGCTATGGATCTTTCTGTCTGAGAAGGTTCTCCCGTTATCAATGGACAGTCTCGA
1 TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
29809 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
66 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
* * * * *
29874 GTTTTTCCCACAGTGTTGGCATAGTTTCCGCTTATCCACTCTGGATTCCACTGAATATGTTTGTT
131 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTCCACCGAATATGTTTGTT
* *
29939 TTCCTCTTCCTTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTATGAGGTCGA
196 TTCCTCTTCCCTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCGA
* *
30004 GAGCTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGATGCACCAGATGTCTTATTCCA
261 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGCACCAGATGTCTTATTCCA
* * * *
30069 TTGCGTCCTTTGTTCCGTAAATCTTTCATTTTGAGATCGCTCTAAAGATTTAGCTCAATTCACTA
326 TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
30134 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
391 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
* *
30199 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGTAAATTGACTCTACTTGTT
456 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTGACTCTAATTGTT
*
30264 GAATTCGCACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
521 GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
*
30329 TTTTCCTGATGAATTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
586 TTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
* *
30394 ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCGCTAAATTCTGGCTTGACCTCTTAATAA
651 ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATAA
*
30459 TGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAGT
716 CGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAGT
* *
30524 CATTGAGCCACATATCGGTGACATCCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
781 CATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
30589 AGACTTTTTAGCTCTTTAGGGACAT
846 AGACTTTTTAGCTCTTTAGGGACAT
** *
30614 TCATAGGAGCAATCGTGGATCTTTCTGTTTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
1 TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
30679 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
66 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
* *
30744 GTTTTTCCCACAGTGTTGGCATGATTTCGGCTTATCCACTCCGAATTCCACCGAATATATTTGTT
131 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTCCACCGAATATGTTTGTT
* *
30809 TTCCTCTTCCCTGATTTGATCCTCTACCAGAGGATGCTGTAGATTCTACTCTAGCCTGAGGTCGA
196 TTCCTCTTCCCTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCGA
* *
30874 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGTACTAGATGTCTTATTCCA
261 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGCACCAGATGTCTTATTCCA
* *
30939 TTGCATCATTTGTTCCATAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCGCTA
326 TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
* *
31004 CCTCTTGGAAGGAAGAGAGGTTAAGTACCAACAATAACTCTTTCAATATGGGGCATAAACCCTCC
391 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
*
31069 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTAACTCTAATTGTT
456 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTGACTCTAATTGTT
31134 GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
521 GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
* *
31199 TTTTTCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAATC
586 TTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
31264 ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATAA
651 ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATAA
*
31329 CGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAAACTTCAAGT
716 CGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAGT
*
31394 CATTGAGCCACATATCGGCGACAACCGGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
781 CATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
31459 AGACTTTTTAGCTCTTTAGGGACAT
846 AGACTTTTTAGCTCTTTAGGGACAT
*
31484 TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCTCGTCATCAATGGACAATCTCGA
1 TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
* *
31549 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCGGAGACCCTTTTATAAACTCCACTATG
66 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
* *
31614 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCAAATTCCACCGAATATGTTTTTT
131 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTCCACCGAATATGTTTGTT
* *
31679 TTCCTTTTCCCTGATTTGATCCTCTACCGGAGGATACTGTAGATTCTACTCTAGTCTGAGGTCGA
196 TTCCTCTTCCCTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCGA
* * *
31744 GAACTCGAACCTCCACTCTTCTTTGATTGAGAAGAACCGAACGACGCACCAGATGTCTTATTCTA
261 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGCACCAGATGTCTTATTCCA
*
31809 TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTTAATTCACTA
326 TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
*
31874 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCGTAAACCCTCC
391 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
* *
31939 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCAGCAGCAAATTGACTCTACTTGTT
456 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTGACTCTAATTGTT
32004 GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
521 GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
32069 TTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
586 TTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
* *
32134 ACCTGATCCCTTAAAGCTCTCATCGTCACATTCGACCACCAAATTATGGCTTGACCTCTTAATAA
651 ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATAA
* * *
32199 CAAAACGGCACCATCCAATTTCTCCATTTCATAACAATGGAGATTCTCTAGCATAACCTTCAAGT
716 CGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAGT
* *
32264 CATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTTACCTCTAAATTCAATCCCTCCT
781 CATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
*
32329 AGACTTTTTAGCTCTTTTGGGACAT
846 AGACTTTTTAGCTCTTTAGGGACAT
* *
32354 TCATATGAGCAGCCGCGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
1 TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
* *
32419 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCGGAGACCCTTGTATAAACTCCACTATG
66 ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
*
32484 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTACACCGAATATGTTTGTT
131 GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTCCACCGAATATGTTTGTT
* *
32549 TTCCTCTTCCCTGATTTGATCATCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCCA
196 TTCCTCTTCCCTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCGA
*
32614 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGATGACGCACCAGATGTCTTATTCCA
261 GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGCACCAGATGTCTTATTCCA
*
32679 TTGCATCCTTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
326 TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
*
32744 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCGTAAACCCTCC
391 CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
* *
32809 ACAAATCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGACAGCAAATTGACTC-AACTTGT
456 ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTGACTCTAA-TTGT
* * *
32873 TGAATTCACACTCAAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTTTTGTTTT
520 TGAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTT
* * *
32938 ATTTTCCTGATGAACGGATCCCCTATATATTTATTCTTAAACTCCTCCAGAAATAAGGGCCAAGT
585 ATTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGT
*
33003 CACCTGATCCCTTGAAGCTCTCATCATCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATA
650 CACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATA
33068 ACGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAG
715 ACGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAG
* *
33133 TCATTGAGCCACATATCGGCGACAACCGGACC-TCTTCATCTTCACCTCTAAATTCAATCCCTCC
780 TCATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCC
33197 AAGACTTTTTAGCTCTTTAGGGACAT
845 AAGACTTTTTAGCTCTTTAGGGACAT
33223 TCAT
1 TCAT
33227 TTTAGAGGTT
Statistics
Matches: 2489, Mismatches: 123, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
869 59 0.02
870 2430 0.98
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (870 bp):
TCATAGGAGCAGCCGTGGATCTTTCTGTCTGGGAAGGTTCTCCCGTCATCAATGGACAATCTCGA
ATAAAATGCCTTGCCTCTCCACACTTAATGCAAGCTCCAGAGACCCTTCTATAAACTCCACTATG
GTTTTTCCCACAGTGTTGGCATAATTTCGGCTTATCCACTCCGAATTCCACCGAATATGTTTGTT
TTCCTCTTCCCTGATTTGATCCTCTACCGGAGGATGCTGTAGATTCTACTCTAGTCTGAGGTCGA
GAACTCGAACCTCTACTCTTCTTTGATTGAGAAGAACCGGACGACGCACCAGATGTCTTATTCCA
TTGCATCATTTGTTCCGTAAATCTTTCATTTTGAGCTCGCTCCAAAGATTTAGCTCAATTCACTA
CCTCTTGGAAGGAAGAGAGGTTGAGTACCAACAATAACTCTTTCAATCTGGGGCATAAACCCTCC
ACAAACCAATCACAAGAGTCATTCTCTGTAGGAACCAACTCGGCAGCAAATTGACTCTAATTGTT
GAATTCACACTCGAACTCATACACCGTGCGATTCCCTTGTTTTAAACTCATAAATTCTTATTTTA
TTTTCCTGATGAACTGATCCCCTATATACTTATTATTAAACTCCTCCAGAAATAAGGGCCAAGTC
ACCTGATCCCTTGAAGCTCTCATCGTCACATTCGACCACCAAATTCTGGCTTGACCTCTTAATAA
CGAAACTGCACCATCCAATTTCTCCATTTCAGAACAATGGAGATTCTCTAGCATAACCTTCAAGT
CATTGAGCCACATATCGGCGACAACCAGACCTTCTTCAGCTTCACCTCTAAATTCAATCCCTCCA
AGACTTTTTAGCTCTTTAGGGACAT
Found at i:34210 original size:23 final size:23
Alignment explanation
Indices: 34184--34248 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
34174 TATTTCATAA
*
34184 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGGGCCACATAGG
*
34207 TTTGCACCGAAGGGCTACATA--
1 TTTGCACCGAAGGGCCACATAGG
*
34228 TTTGTC-CCGAAGGACCACATA
1 TTTG-CACCGAAGGGCCACATA
34249 ACACCCTCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.46
22 1 0.03
23 19 0.51
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (23 bp):
TTTGCACCGAAGGGCCACATAGG
Found at i:36233 original size:20 final size:20
Alignment explanation
Indices: 36195--36236 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36185 AATAGTATTG
*
36195 TACTATATGAATAGCACCGA
1 TACTATATGAATAACACCGA
* *
36215 TACTGTATGAATAATACCGA
1 TACTATATGAATAACACCGA
36235 TA
1 TA
36237 TTGTGTGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (20 bp):
TACTATATGAATAACACCGA
Found at i:40593 original size:20 final size:20
Alignment explanation
Indices: 40568--40607 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
40558 GGCTTGAAAT
40568 TACTGTAGCAATATCGATAC
1 TACTGTAGCAATATCGATAC
*
40588 TACTGTAGCAGTATCGATAC
1 TACTGTAGCAATATCGATAC
40608 CCATTGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (20 bp):
TACTGTAGCAATATCGATAC
Found at i:40685 original size:20 final size:20
Alignment explanation
Indices: 40662--40717 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
40652 GTTCACATAG
*
40662 TATCGATACTATTTATACAA
1 TATCGATACTATTCATACAA
* *
40682 TATCGGTACTATTCATACAG
1 TATCGATACTATTCATACAA
*
40702 TA-CAATACTATTCATA
1 TATCGATACTATTCATA
40718 AAAACATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (20 bp):
TATCGATACTATTCATACAA
Found at i:43249 original size:14 final size:14
Alignment explanation
Indices: 43230--43272 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
43220 AACATAGTAC
43230 GATGAAGTGAAAAG
1 GATGAAGTGAAAAG
43244 GATGAAGTGAAAAAG
1 GATGAAGTG-AAAAG
*
43259 GAAGAAGTGAAAAG
1 GATGAAGTGAAAAG
43273 TTGTTAGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (14 bp):
GATGAAGTGAAAAG
Found at i:43259 original size:15 final size:15
Alignment explanation
Indices: 43230--43271 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
43220 AACATAGTAC
43230 GATGAAGTG-AAAAG
1 GATGAAGTGAAAAAG
43244 GATGAAGTGAAAAAG
1 GATGAAGTGAAAAAG
*
43259 GAAGAAGTGAAAA
1 GATGAAGTGAAAA
43272 GTTGTTAGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (15 bp):
GATGAAGTGAAAAAG
Found at i:44213 original size:20 final size:20
Alignment explanation
Indices: 44190--44234 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44180 TTCCAAATTC
*
44190 GCAACGTGAATATGTAAATA
1 GCAACGCGAATATGTAAATA
* *
44210 GCAACGCGAATCTGTAAATC
1 GCAACGCGAATATGTAAATA
44230 GCAAC
1 GCAAC
44235 ACATAAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
GCAACGCGAATATGTAAATA
Found at i:44266 original size:20 final size:20
Alignment explanation
Indices: 44243--44355 Score: 86
Period size: 20 Copynumber: 5.6 Consensus size: 20
44233 ACACATAAGT
* *
44243 CAAATTCGCAATGTGATTTC
1 CAAATTCGCAACGTGATTTA
44263 CAAATTCGCAACGTGATTTA
1 CAAATTCGCAACGTGATTTA
*** *
44283 CAAATTCGCGTTGCGATTTA
1 CAAATTCGCAACGTGATTTA
* *
44303 CAAATTCACAACACTGAATTT-
1 CAAATTCGCAAC-GTG-ATTTA
* *
44324 CAAATTCGTAAC-TCGATTTT
1 CAAATTCGCAACGT-GATTTA
*
44344 CGAATTCGCAAC
1 CAAATTCGCAAC
44356 ACGAATTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 8
0.75 0.16 0.08
Matches are distributed among these distances:
19 5 0.07
20 53 0.73
21 11 0.15
22 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (20 bp):
CAAATTCGCAACGTGATTTA
Found at i:44287 original size:40 final size:41
Alignment explanation
Indices: 44242--44374 Score: 112
Period size: 40 Copynumber: 3.3 Consensus size: 41
44232 AACACATAAG
* * * *
44242 TCAAATTCGCAATGTGATTTCCAAATTCGCAAC-GTG-ATT
1 TCAAATTCGCAATGCGATTTACAAATTCACAACACTGAATT
**
44281 TACAAATTCGCGTTGCGATTTACAAATTCACAACACTGAATT
1 T-CAAATTCGCAATGCGATTTACAAATTCACAACACTGAATT
* * * *
44323 TCAAATTCGTAACT-CGATTTTCGAATTCGCAACAC-GAATT
1 TCAAATTCGCAA-TGCGATTTACAAATTCACAACACTGAATT
* *
44363 TTAATTTCGCAA
1 TCAAATTCGCAA
44375 CATGTTTTAT
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 41 0.55
41 28 0.37
42 5 0.07
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (41 bp):
TCAAATTCGCAATGCGATTTACAAATTCACAACACTGAATT
Found at i:44373 original size:20 final size:17
Alignment explanation
Indices: 44348--44394 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
44338 GATTTTCGAA
44348 TTCGCAACACGAATTTTAAT
1 TTCGCAACACG--TTTT-AT
*
44368 TTCGCAACATGTTTTAT
1 TTCGCAACACGTTTTAT
44385 TTCGCAACAC
1 TTCGCAACAC
44395 AAATGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.44
18 4 0.16
20 10 0.40
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (17 bp):
TTCGCAACACGTTTTAT
Found at i:44548 original size:14 final size:15
Alignment explanation
Indices: 44529--44566 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44519 TTCCCATCTC
44529 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
44543 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
44559 TAATTTTT
1 TAATTTTT
44567 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:45320 original size:24 final size:24
Alignment explanation
Indices: 45293--45346 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
45283 GTATTCGAAA
45293 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
45317 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
45341 TTTGAT
1 TTTGAT
45347 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:47877 original size:20 final size:20
Alignment explanation
Indices: 47838--47879 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
47828 TTTTATGTAG
**
47838 TCAAATATGCAACGTGAAAA
1 TCAAATATGCAACGCAAAAA
*
47858 TCAAATTTGCAACGCAAAAA
1 TCAAATATGCAACGCAAAAA
47878 TC
1 TC
47880 GCAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (20 bp):
TCAAATATGCAACGCAAAAA
Found at i:48146 original size:29 final size:30
Alignment explanation
Indices: 48090--48148 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
48080 AAAATTATAA
* *
48090 TTTAACTACTAACTTTACTAATTTCTAATT
1 TTTAACCACTAACTTTACTAACTTCTAATT
48120 TTTAACCACTAAC-TTACTAACTTCTAATT
1 TTTAACCACTAACTTTACTAACTTCTAATT
48149 ACTAACCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTAACCACTAACTTTACTAACTTCTAATT
Found at i:48154 original size:29 final size:30
Alignment explanation
Indices: 48092--48155 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
48082 AATTATAATT
* * **
48092 TAACTACTAACTTTACTAATTTCTAATTTT
1 TAACCACTAACTTTACTAACTTCTAATTAC
48122 TAACCACTAAC-TTACTAACTTCTAATTAC
1 TAACCACTAACTTTACTAACTTCTAATTAC
48151 TAACC
1 TAACC
48156 CTTAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (30 bp):
TAACCACTAACTTTACTAACTTCTAATTAC
Found at i:48323 original size:29 final size:28
Alignment explanation
Indices: 48277--48337 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 28
48267 CAATTTTATG
48277 TTTCTATTATTTACATTTCTGCCCTTTAA
1 TTTCTATTATTTACATTTCTG-CCTTTAA
*
48306 TTTCTATTATTTTA-ATTTTTGCCTTTAA
1 TTTCTATTA-TTTACATTTCTGCCTTTAA
48334 TTTC
1 TTTC
48338 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.37
29 15 0.50
30 4 0.13
ACGTcount: A:0.20, C:0.16, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTCTATTATTTACATTTCTGCCTTTAA
Found at i:48416 original size:23 final size:22
Alignment explanation
Indices: 48385--48463 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
48375 TTATTTTTAA
48385 GCATTTTATTTTAGTCCTATAT
1 GCATTTTATTTTAGTCCTATAT
** *
48407 GCATGTTTATTTTA-TTTTCT-T
1 GCAT-TTTATTTTAGTCCTATAT
48428 GCATTTTATTTTAGTCCTATAT
1 GCATTTTATTTTAGTCCTATAT
*
48450 GCCTGTTTATTTTA
1 GCAT-TTTATTTTA
48464 ATTTTTGTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
20 9 0.20
21 8 0.17
22 11 0.24
23 18 0.39
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.58
Consensus pattern (22 bp):
GCATTTTATTTTAGTCCTATAT
Found at i:48423 original size:43 final size:42
Alignment explanation
Indices: 48373--48469 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 42
48363 TTTAATGTGC
48373 TTTTATTTTTAAGCATTTTATTTTAGTCCTATATGCATGTTTA
1 TTTTATTTTT-AGCATTTTATTTTAGTCCTATATGCATGTTTA
* *
48416 TTTTATTTTCTTGCATTTTATTTTAGTCCTATATGCCTGTTTA
1 TTTTATTTT-TAGCATTTTATTTTAGTCCTATATGCATGTTTA
48459 TTTTAATTTTT
1 TTTT-ATTTTT
48470 GTTGTTTTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
43 44 0.88
44 6 0.12
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.62
Consensus pattern (42 bp):
TTTTATTTTTAGCATTTTATTTTAGTCCTATATGCATGTTTA
Found at i:49040 original size:14 final size:14
Alignment explanation
Indices: 49021--49047 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49011 TTTTTTAAAA
49021 TGAATAGTGAACAG
1 TGAATAGTGAACAG
49035 TGAATAGTGAACA
1 TGAATAGTGAACA
49048 ATGTACAGTA
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:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
TGAATAGTGAACAG
Found at i:49836 original size:116 final size:116
Alignment explanation
Indices: 49701--49959 Score: 351
Period size: 116 Copynumber: 2.2 Consensus size: 116
49691 ATACCATTAG
* * *
49701 TATGATTTTGTTACCATTTTAGCACATAAT-ATGCCCTATCTGGAAATCCATATTTTCAATATGA
1 TATGA-TTTCTTACCATTTTAGCACATAATAAT-CCCTATATGGAAATCCATAATTTCAATATGA
* * * * **
49765 TTTCCTTATCATTTAGTACCCTTAGTGCT-TATCTGGAAACCCATACACTCAA
64 TTTCCTTATCATTTAGCACACTCAGTGCTCCAAATGGAAACCCATACACTCAA
49817 TATGATTCTCTTACCATTTTAGCACATAATAATCCCTATATGGAAATCCATAATTTCAATATGAT
1 TATGATT-TCTTACCATTTTAGCACATAATAATCCCTATATGGAAATCCATAATTTCAATATGAT
* *
49882 TTCCTTATCATTTAGCACACTCAGTGCTCCAAATGGAAATCCATACACTCAG
65 TTCCTTATCATTTAGCACACTCAGTGCTCCAAATGGAAACCCATACACTCAA
* *
49934 TATGATTTCCTTATCATTCTAGCACA
1 TATGATTT-CTTACCATTTTAGCACA
49960 CAAAGTGCCA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
115 2 0.02
116 82 0.65
117 42 0.33
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (116 bp):
TATGATTTCTTACCATTTTAGCACATAATAATCCCTATATGGAAATCCATAATTTCAATATGATT
TCCTTATCATTTAGCACACTCAGTGCTCCAAATGGAAACCCATACACTCAA
Found at i:49924 original size:58 final size:57
Alignment explanation
Indices: 49741--49960 Score: 205
Period size: 58 Copynumber: 3.8 Consensus size: 57
49731 ATGCCCTATC
*** * * * *
49741 TGGAAATCCATATTTTCAATATGATTTCCTTATCATTTAGTACCCTTAGTGCT-TATC
1 TGGAAATCCATACACTCAATATGATTTCCTTATCATTTAGCACAC-TAGTGCTCCATA
* * * **
49798 TGGAAACCCATACACTCAATATGA-TTCTCTTACCATTTTAGCACA-TAATAATCCCTATA
1 TGGAAATCCATACACTCAATATGATTTC-CTTATCA-TTTAGCACACTAGTGCT-CC-ATA
* *
49857 TGGAAATCCATA-ATTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCAAA
1 TGGAAATCCATACA-CTCAATATGATTTCCTTATCATTTAGCACACT-AGTGCTCCATA
*
49915 TGGAAATCCATACACTCAGTATGATTTCCTTATCATTCTAGCACAC
1 TGGAAATCCATACACTCAATATGATTTCCTTATCATT-TAGCACAC
49961 AAAGTGCCAT
Statistics
Matches: 131, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
56 7 0.05
57 26 0.20
58 52 0.40
59 40 0.31
60 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (57 bp):
TGGAAATCCATACACTCAATATGATTTCCTTATCATTTAGCACACTAGTGCTCCATA
Found at i:49987 original size:59 final size:57
Alignment explanation
Indices: 49627--49968 Score: 201
Period size: 59 Copynumber: 5.9 Consensus size: 57
49617 TCTATCTGGA
* * * * * * *
49627 AAAT-CATACACTTAGTATGCTTCCCTTTTCATTTTAGCACACAAAGTGCCCTATTCGA
1 AAATCCATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAAAGTGCCCAAAT-GG
* ** * * **
49685 AAATCCATAC-CATTAGTATGATTTTGTTACCATTTTAGCACATAATA-TGCCCTATCTGG
1 AAATCCATACAC-TCAGTATGATTTCCTTATCA-TTTAGCACACAA-AGTGCCC-AAATGG
*** * * * ** ** **
49744 AAATCCATATTTTCAATATGATTTCCTTATCATTTAGTACCCTTAGTGCTTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCCCAAATGG
* * * * * *
49801 AAACCCATACACTCAATATGA-TTCTCTTACCATTTTAGCACATAATAAT-CCCTATATGG
1 AAATCCATACACTCAGTATGATTTC-CTTATCA-TTTAGCACACAA-AGTGCCC-AAATGG
* * **
49860 AAATCCATA-ATTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCAAATGG
1 AAATCCATACA-CTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGC-CCAAATGG
49918 AAATCCATACACTCAGTATGATTTCCTTATCATTCTAGCACACAAAGTGCC
1 AAATCCATACACTCAGTATGATTTCCTTATCATT-TAGCACACAAAGTGCC
49969 ATTCGGTAAT
Statistics
Matches: 217, Mismatches: 51, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
56 3 0.01
57 32 0.15
58 70 0.32
59 107 0.49
60 5 0.02
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (57 bp):
AAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCCCAAATGG
Found at i:56211 original size:21 final size:21
Alignment explanation
Indices: 56185--56228 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
56175 AATAAAAAAT
*
56185 GTGTATCGATGCACTGCTACA
1 GTGTATCGATACACTGCTACA
56206 GTGTATCGATACACTGCTACA
1 GTGTATCGATACACTGCTACA
56227 GT
1 GT
56229 AATTTCTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
GTGTATCGATACACTGCTACA
Found at i:56832 original size:59 final size:59
Alignment explanation
Indices: 56779--57028 Score: 237
Period size: 58 Copynumber: 4.3 Consensus size: 59
56769 TATGAGTTTG
* *
56779 TTACCATTTTAGCACATAATATGCCCTATCTAGAAATCCATATTTTCAATATGATTTCC
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCC
* * ** * *
56838 TTATCA-TTTAGCACCCT--TAGTGCTTTATCTGGAAACCCATACA-CTCAATATGATTTCC
1 TTACCATTTTAGCA-CATAATA-TGCCCTATCTGGAAATCCATA-ATTTCAATATGATTTCC
*
56896 TTACCATTTTAGCACATAATATGCCCTATATGGAAATCCATAATTTCAATATGATTTCC
1 TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCC
* * * * * *
56955 TTATCA-TTTAGCACACTCA-GTGCTCC-ATATGGAAATCCATACA-CTCAGTATGATTTCC
1 TTACCATTTTAGCACA-TAATATGC-CCTATCTGGAAATCCATA-ATTTCAATATGATTTCC
* *
57013 TTATCATTCTAGCACA
1 TTACCATTTTAGCACA
57029 CAAAGTGCCA
Statistics
Matches: 159, Mismatches: 21, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
57 2 0.01
58 92 0.58
59 63 0.40
60 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (59 bp):
TTACCATTTTAGCACATAATATGCCCTATCTGGAAATCCATAATTTCAATATGATTTCC
Found at i:56878 original size:58 final size:58
Alignment explanation
Indices: 56824--57027 Score: 243
Period size: 58 Copynumber: 3.5 Consensus size: 58
56814 ATCCATATTT
* * *
56824 TCAATATGATTTCCTTATCATTTAGCACCCTTAGTGCTTTATCTGGAAACCCATACAC
1 TCAATATGATTTCCTTATCATTTAGCACCCTTAGTGCTCTATATGGAAATCCATACAC
* * * *
56882 TCAATATGATTTCCTTACCATTTTAGCA-CATAATA-TGCCCTATATGGAAATCCATA-ATT
1 TCAATATGATTTCCTTATCA-TTTAGCACCCT--TAGTGCTCTATATGGAAATCCATACA-C
* * *
56941 TCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCCATACAC
1 TCAATATGATTTCCTTATCATTTAGCACCCTTAGTGCTCTATATGGAAATCCATACAC
*
56999 TCAGTATGATTTCCTTATCATTCTAGCAC
1 TCAATATGATTTCCTTATCATT-TAGCAC
57028 ACAAAGTGCC
Statistics
Matches: 123, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
57 1 0.01
58 69 0.56
59 51 0.41
60 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (58 bp):
TCAATATGATTTCCTTATCATTTAGCACCCTTAGTGCTCTATATGGAAATCCATACAC
Found at i:56878 original size:117 final size:118
Alignment explanation
Indices: 56779--57028 Score: 378
Period size: 117 Copynumber: 2.1 Consensus size: 118
56769 TATGAGTTTG
* *
56779 TTACCATTTTAGCACATAATATGCCCTATCTAGAAATCCATATTTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATATAGAAATCCATAATTTCAATATGATTTCCTTATCA
* * ** *
56844 TTTAGCACCCTTAGTGCTTTATCTGGAAACCCATA-CACTCAATATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATGGAAACCCATACCACTCAATATGATTTCC
*
56896 TTACCATTTTAGCACATAATATGCCCTATATGGAAATCCATAATTTCAATATGATTTCCTTATCA
1 TTACCATTTTAGCACATAATATGCCCTATATAGAAATCCATAATTTCAATATGATTTCCTTATCA
* *
56961 TTTAGCACACTCAGTGCTCCATATGGAAATCCATA-CACTCAGTATGATTTCC
66 TTTAGCACACTCAGTGCTCCATATGGAAACCCATACCACTCAATATGATTTCC
* *
57013 TTATCATTCTAGCACA
1 TTACCATTTTAGCACA
57029 CAAAGTGCCA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (118 bp):
TTACCATTTTAGCACATAATATGCCCTATATAGAAATCCATAATTTCAATATGATTTCCTTATCA
TTTAGCACACTCAGTGCTCCATATGGAAACCCATACCACTCAATATGATTTCC
Found at i:57056 original size:59 final size:57
Alignment explanation
Indices: 56696--57037 Score: 232
Period size: 58 Copynumber: 5.9 Consensus size: 57
56686 TCTATCTGGA
* * * * *
56696 AAAT-CATACACTTAGTATGCTTCCCTT-TCATTTTAGCACACAAAGAGCCC-TATTCGA
1 AAATCCATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAAAGTGCCCATA-T-GG
* * * * * *
56753 AAATCCATAC-CATTAGTATGAGTTT-GTTACCATTTTAGCACATAATA-TGCCCTATCTAG
1 AAATCCATACAC-TCAGTATGA-TTTCCTTATCA-TTTAGCACACAA-AGTGCCC-ATATGG
*** * * ** ** *
56812 AAATCCATATTTTCAATATGATTTCCTTATCATTTAGCACCCTTAGTGCTTTATCTGG
1 AAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGC-CCATATGG
* * * *
56870 AAACCCATACACTCAATATGATTTCCTTACCATTTTAGCACATAATA-TGCCCTATATGG
1 AAATCCATACACTCAGTATGATTTCCTTATCA-TTTAGCACACAA-AGTGCCC-ATATGG
* * **
56929 AAATCCATA-ATTTCAATATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
1 AAATCCATACA-CTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGC-CCATATGG
56987 AAATCCATACACTCAGTATGATTTCCTTATCATTCTAGCACACAAAGTGCC
1 AAATCCATACACTCAGTATGATTTCCTTATCATT-TAGCACACAAAGTGCC
57038 ATTCGGTAAT
Statistics
Matches: 222, Mismatches: 44, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
57 7 0.03
58 111 0.50
59 100 0.45
60 3 0.01
61 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (57 bp):
AAATCCATACACTCAGTATGATTTCCTTATCATTTAGCACACAAAGTGCCCATATGG
Found at i:57458 original size:64 final size:63
Alignment explanation
Indices: 57390--57528 Score: 142
Period size: 63 Copynumber: 2.2 Consensus size: 63
57380 CACAGCCTAC
57390 GCATCGATGCACT-ATATGCATTCGATG-TT-TTCATCTTAAGGGAGTGCATCGATACACTA-TC
1 GCATCGATGCACTCA-ATGCATTCGATGCTTATTCAT-TT-A-GGAGTGCATCGATACACTACT-
*
57451 TGT
61 TAT
** * * * *
57454 GCATCGATAAACTCAGTGCATTCGATGCTTATTTATTTAGGTGTGCATCGATGCACTACTTAT
1 GCATCGATGCACTCAATGCATTCGATGCTTATTCATTTAGGAGTGCATCGATACACTACTTAT
57517 GCATCGATGCAC
1 GCATCGATGCAC
57529 CTTACCCGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
63 29 0.47
64 24 0.39
65 5 0.08
66 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (63 bp):
GCATCGATGCACTCAATGCATTCGATGCTTATTCATTTAGGAGTGCATCGATACACTACTTAT
Found at i:57474 original size:17 final size:18
Alignment explanation
Indices: 57432--57479 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
57422 ATCTTAAGGG
*
57432 AGTGCATCGATACACTATC
1 AGTGCATCGATAAAC-ATC
*
57451 TGTGCATCGATAAAC-TC
1 AGTGCATCGATAAACATC
57468 AGTGCATTCGAT
1 AGTGCA-TCGAT
57480 GCTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 7 0.28
18 5 0.20
19 13 0.52
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (18 bp):
AGTGCATCGATAAACATC
Done.