Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017539.1 Corchorus olitorius cultivar O-4 contig17572, 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: 22620
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:2329 original size:12 final size:13
Alignment explanation
Indices: 2312--2360 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
2302 TTTTCAACTT
2312 TAATATATA-ATA
1 TAATATATATATA
2324 TAATATATATATA
1 TAATATATATATA
* *
2337 TTATGTTATATATA
1 TAAT-ATATATATA
2351 TAACTATATA
1 TAA-TATATA
2361 AGTAACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 9 0.30
13 6 0.20
14 14 0.47
15 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
TAATATATATATA
Found at i:2335 original size:16 final size:16
Alignment explanation
Indices: 2314--2358 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2304 TTCAACTTTA
2314 ATATATAATATAATAT
1 ATATATAATATAATAT
* **
2330 ATATATATTATGTTAT
1 ATATATAATATAATAT
2346 ATATATAACTATA
1 ATATATAA-TATA
2359 TAAGTAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATATAATATAATAT
Found at i:2337 original size:18 final size:18
Alignment explanation
Indices: 2314--2352 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2304 TTCAACTTTA
2314 ATATATAATATAATATAT
1 ATATATAATATAATATAT
* * *
2332 ATATATTATGTTATATAT
1 ATATATAATATAATATAT
2350 ATA
1 ATA
2353 ACTATATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATATAATATAATATAT
Found at i:7002 original size:4 final size:4
Alignment explanation
Indices: 6995--7019 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6985 ATTATTAGTT
6995 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
7020 GACATGCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:15198 original size:5 final size:5
Alignment explanation
Indices: 15190--15247 Score: 64
Period size: 5 Copynumber: 11.0 Consensus size: 5
15180 GATATATCAT
*
15190 ATATA ATATA ATATA ATA-A TATATA ATACTCCT ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA -ATATA ATA-T--A ATATA ATATA ATATA
15238 ATATA ATATA
1 ATATA ATATA
15248 TTAAAGTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
4 1 0.02
5 39 0.85
6 2 0.04
7 1 0.02
8 3 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:17333 original size:660 final size:654
Alignment explanation
Indices: 15525--18703 Score: 4035
Period size: 660 Copynumber: 4.8 Consensus size: 654
15515 AGGGTCCCAA
* * * *
15525 CTCAGTTTTGCATGATTTTTGGCATCAAAACTCATTGAAATATCGAAATTCATCTA-ACGAAAGC
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTACA-GAAAGC
* * * *
15589 TCAGATACATTGGATTTAAGGATTTTTTTTACAAGCATCTCAATCCGGTTTCGAATTAAATAGAA
65 TCAGACACATTGGATTTAAGGATTTTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* * *
15654 ATTAATTCGGGAAAAAAAGAAAAACAATATTAGAAGCGTGAGAAATCCTTCAATC-TTTTGGCGT
130 ATTAATTCTGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
* * *
15718 TGAGTTATATATTTGTTATGAGTACTGATGGCCAAAAATTGA-GAAAAATGTTTCGGGTCAATTT
195 TGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTCAATTT
*** * * * * * * *
15782 TTGGTGTAATTTTAGCCGAAATCATG-T-A-CGTTACAATTATTGAATAAAAACGCGTTTCGTGG
260 TT-GAAAAATTTTAGCCGAAATCATGCTAACCATCACAGTTTTTGATTAAAAACGCGTTCCGGGG
* * * * * *
15844 TCCCAGCTCAGTTTTGCGTGATTTTTGGCGTCAAGACACATTAAAAGATCTATATTCATCTAACG
324 CCCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACG
* *
15909 AAAGCACA-ACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCGGTTTCGATTTAT
389 AAAGCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGATTTAT
* * *
15973 TTAGAAATTAAATCG-AAGAAA-AAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATCTTTCTG
454 TTAGAAATTAATTCGAAAAAAAGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATCTTTTTG
* * **
16036 GCGTTGAGTTAAGTATTTTTTATGAGTATTGTGGCCAAAAAGTGAGGAGAAATGTTTCAAATCAA
519 GCGTTGAGTTAAGTATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGCTTCAGGTCAA
*
16101 TTTTTGCAAAATTTTAGCCGAAATCATGTA-CATCACGGTTTTTTGACTAAAACCGT-GTTTCGG
584 TTTTTGCAAAATTTTAGCCGAAATCATGTACCATCACGG-TTTTTGACTAAAAAC-TCGTTTCGG
* *
16164 GGCCACGA
647 GGCCCCGG
*
16172 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTAATCTAGC-GAAAGC
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTA-CAGAAAGC
*
16236 TCAGACACATTGGATTTAAGGATTTTTTTTACAAGCATCTCAATCCGGTTTCGATTTAATTAGAA
65 TCAGACACATTGGATTTAAGGATTTTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* *
16301 ATTAATTCGGGAAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATATTTTTGGCG
130 ATTAATTCTGG-AAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCG
* * *
16366 TTGAGTTATATAGATTTTTATGAGTATTGATGGTCAAAAATTGAGGAGAAATGTTTCGGGTCAAC
194 TTGAGTTATATA-TTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTCAAT
* * * *
16431 TTTTGCAAAATTTTAGCAGAAATCATGTACTAACGATCACAGTTTTTGTTTAAAAAACGCGTTCC
258 TTTTGAAAAATTTTAGCCGAAATCATG--CTAACCATCACAGTTTTTGATT-AAAAACGCGTTCC
* * * *
16496 GGGGCCCCGGCTTAGTTTTGCATGATTTTTGGCATCAAGACTCATTGAAATATCTATATTTATAT
320 GGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCT
***
16561 AACGAAAGCTCA-ACTACACCAGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGA
385 AACGAAAGCTCAGAC-ACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGA
16625 TTTATTTAGAAATTAATTCGAAAAAAATGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATC
449 TTTATTTAGAAATTAATTCGAAAAAAA-GAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATC
* *
16690 TTTTTGGCGTTGAGTTAAGTATTTTTTATGAGTATTGTGGCCAAAGATTGAGGAGAAATGTTTCA
513 TTTTTGGCGTTGAGTTAAGTATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGCTTCA
*
16755 GGCCAATTTTTGCAAAATTTTAGCCGAAATCATGAACTAACCATCACGGTTTTTGACTAAAAACT
578 GGTCAATTTTTGCAAAATTTTAGCCGAAATCATG---T-ACCATCACGGTTTTTGACTAAAAACT
16820 CGTTTCGGGGCCCCGG
639 CGTTTCGGGGCCCCGG
* * * *
16836 TTCAGTTTTGCATGATTTTTGGCGTCAAGACTCAATGATATGTCTATATTCATCTACAGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTACAGAAAGCT
* * * * *
16901 CAGACACATTGGATTTAAGGATTTATTTTTATGAGCATCTAAATCCAGTTGCGATTTAATTAAAA
66 CAGACACATTGGATTTAAGGATTT-TTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* *
16966 ATTAATTCTAGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCAT
130 ATTAATTCTGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
* * *
17031 TGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTAAGGAGAAATGTTTCAGGTCGATTT
195 TGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTCAATTT
** *
17096 TTTCAAAATTTTAGCCGAAATC-TGCTAACCATCACAGTTTTTGATTAAAAACGTGTTCCGGGGC
260 TTGAAAAATTTTAGCCGAAATCATGCTAACCATCACAGTTTTTGATTAAAAACGCGTTCCGGGGC
* * * *
17160 TCTGGCTCAGTTTTGCATGTTTTTTGGCGTCAAGACTCATTGAAATATCTATGTTCATCTAACGA
325 CCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGA
* * * *
17225 AAGCTCAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCTAGTTTCGATTTAAT
390 AAGCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGATTTATT
* ** * * * *
17290 TAAAAATTGTTTCGGGAAAAAAAGAAAAACAATAATAGAAGCGTGAGAAGTCCTTCAATAC-TTT
455 TAGAAATTAATTC--GAAAAAAAGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAAT-CTTTT
* * * *
17354 TGGCATTGAGTT--CTAATTCTTTATGAGTATTGATGGCCAAAGATTGAGGAGAAATGCTTCAGG
517 TGGCGTTGAGTTAAGT-ATTTTTTATGAGTATTG-TGGCCAAAAATTGAGGAGAAATGCTTCAGG
* * * * * *
17417 TCAGTTTTGGCAAAATTTTAGCCGAAATCATGT-TCGTCACGG-TTTTGACTAAAAATTC-ATTC
580 TCAATTTTTGCAAAATTTTAGCCGAAATCATGTACCATCACGGTTTTTGACTAAAAACTCGTTTC
*
17479 TGGGGCCCCTG
645 -GGGGCCCCGG
* * *
17490 CTAAGTTTTGCATTATTTCTGGCGTCAAGACTCATTGAAATATCTATATTCATCTA-ACGAAAGC
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTACA-GAAAGC
* * **
17554 TCAGATACATTGCATTTAAGGATTTCTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGA
65 TCAGACACATTGGATTTAAGGATTT-TTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGA
* *
17619 AATTAATT-TGGGAAAAGAAAAGAAAAACTATATTAGAAGCGTGAGAAGTCCTTTAATCTTTTTG
129 AATTAATTCT-GG-AAA-AAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTG
* * * ***
17683 GCGATGAGTTATATATTTTTTATGAGTATTG-TAGCAAAAAATTGAGGAGAAATGTTTTTCGTCA
191 GCGTTGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTCA
* * *
17747 ATTTTTGAAAAATTTTAGCCGAAATCATGTGTTAACACCATCACGGTTTTTGACTAAAAACGCGT
256 ATTTTTGAAAAATTTTAGCCGAAATCA--TGCT-A-ACCATCACAGTTTTTGATTAAAAACGCGT
* * * *
17812 TACGGGGCCCCGACTCAGTTTTGCATGATTTTTGGTGTCAAGA--C-------TATCTATGTTCA
317 TCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCA
* * **
17868 TCTAACGAAA-CACAGACACATTGGATTTAAGGATTTGTATTTTACGAGCATCTCAATCTGGTTT
382 TCTAACGAAAGCTCAGACACATTGGATTTAAGGATTTGT-TTTTACGAGTATCTCAATCCAGTTT
* * *
17932 CGATTTAATTA-AAATTAATTCGGGATAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCT
446 CGATTTATTTAGAAATTAATTC--G--AAAAAAAGAAAAACGATATTTGAAGCGTGAGAAGCCCT
* * * *
17996 TCAATCTTTTTGGCGTTGAGTTATA-TAGTTTTTATGAGTATTGATAGCCAAAAATAT-TGGAAA
507 TCAATCTTTTTGGCGTTGAGTTA-AGTATTTTTTATGAGTATTG-TGGCCAAAAAT-TGAGGAGA
* * *
18059 AATGCTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTGA
569 AATGCTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG---T-ACCATCACGGTTTTTGA
* * * * *
18124 TTAAAACCGCGTTCCAGGGCCCCGG
630 CTAAAAACTCGTTTCGGGGCCCCGG
* * * *
18149 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAGTATCTATATCCATCAAGC-GAAAGG
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTA-CAGAAAGC
* *
18213 TCAGAGACATTGGATTTAAGGATTATTTTTTTCACGAGCATCTCAATTCGGTTTCGATTTAATTA
65 TCAGACACATTGGATTTAAGGA-T-TTTTTTT-ACGAGCATCTCAATCCGGTTTCGATTTAATTA
18278 GAAATTAATT-TGGGAAAAAAA-AGAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTT
127 GAAATTAATTCT-GGAAAAAAAGA-AAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTT
* * *
18341 GGCGTTCAGTTATATAGTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGCTTCGGGTC
190 GGCGTTGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTC
* * * * *
18406 AATTTTTGAAAAATTTTAACAGAAATTATGTACTAACCATCACGGTTTTTGAGTAAAAAACGCGT
255 AATTTTTGAAAAATTTTAGCCGAAATCATG--CTAACCATCACAGTTTTTGA-TTAAAAACGCGT
* * * * * *
18471 TCTGGGGCCCCGGCTTAGTTTTGTATGATTTTTGGCCTCAAGACTCATTGAAATATCTCTATTTA
317 TCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCA
* * * * *
18536 TATAACGAAAGCTCAGCCACATCGAATTTAAGGATTT-CTTTTACGAGTATCTCAATCCAGTTTC
382 TCTAACGAAAGCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTC
* *
18600 GATTTATTTAGAACTTAATTCGAAAAAAAGAAAAACGATATTTGAAGCATGAGAAGCCCTTCAAT
447 GATTTATTTAGAAATTAATTCGAAAAAAAGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAAT
18665 CTTTTTGGCGTTGAGTTAAGTATTTTTTATGAGTATTGT
512 CTTTTTGGCGTTGAGTTAAGTATTTTTTATGAGTATTGT
18704 AGGCAATCAC
Statistics
Matches: 2216, Mismatches: 239, Indels: 138
0.85 0.09 0.05
Matches are distributed among these distances:
647 130 0.06
648 41 0.02
649 20 0.01
650 83 0.04
651 80 0.04
652 55 0.02
653 74 0.03
654 147 0.07
655 70 0.03
656 154 0.07
657 65 0.03
658 36 0.02
659 369 0.17
660 381 0.17
661 55 0.02
662 2 0.00
663 73 0.03
664 248 0.11
665 51 0.02
666 1 0.00
667 32 0.01
668 27 0.01
669 22 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (654 bp):
CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTACAGAAAGCT
CAGACACATTGGATTTAAGGATTTTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAA
TTAATTCTGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGTT
GAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCGGGTCAATTTT
TGAAAAATTTTAGCCGAAATCATGCTAACCATCACAGTTTTTGATTAAAAACGCGTTCCGGGGCC
CCGGCTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAA
AGCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGATTTATTT
AGAAATTAATTCGAAAAAAAGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATCTTTTTGGC
GTTGAGTTAAGTATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGCTTCAGGTCAATT
TTTGCAAAATTTTAGCCGAAATCATGTACCATCACGGTTTTTGACTAAAAACTCGTTTCGGGGCC
CCGG
Found at i:17586 original size:325 final size:327
Alignment explanation
Indices: 15525--18702 Score: 3831
Period size: 325 Copynumber: 9.7 Consensus size: 327
15515 AGGGTCCCAA
* * * *
15525 CTCAGTTTTGCATGATTTTTGGCATCAAAACTCATTGAAATATCGAAATTCATCTAACGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
* * * *
15590 CAGATACATTGGATTTAAGGATTT-TTTTTACAAGCATCTCAATCCGGTTTCGAATTAAATAGAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* *
15654 ATTAATTCGGGAAAAAAAGAAAAACAATATTAGAAGCGTGAGAAATCCTTCAATC-TTTTGGCGT
131 ATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
* * *
15718 TGAGTTATATATTTGTTATGAGTACTGATGGCCAAAAATTGA-GAAAAATGTTTCGGGTCAATTT
196 TGAGTTATATATTT-TTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTT
*** * * ** * * * *
15782 TTGGTGTAATTTTAGCCGAAATCATGTA-CGTTACAATTATTGAATAAAAACGCGTT-TCGTGGT
260 TT-GCAAAATTTTAGCCGAAATCATGTATCATCACGGTTTTTGACTAAAAACGCGTTCT-GGGGC
*
15845 CCCAG
323 CCCGG
* * * * *
15850 CTCAGTTTTGCGTGATTTTTGGCGTCAAGACACATTAAAAGATCTATATTCATCTAACGAAAGCA
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
* * *
15915 CA-ACACATTGGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCGGTTTCGATTTATTTAGAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* * * * *
15979 ATTAAATC--G-AAGAAA-AAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATCTTTCTGGCGT
131 ATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
* **
16040 TGAGTTA-AGTATTTTTTATGAGTATTG-TGGCCAAAAAGTGAGGAGAAATGTTTCAAATCAATT
196 TGAGTTATA-TA-TTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATT
* *
16103 TTTGCAAAATTTTAGCCGAAATCATGTA-CATCACGGTTTTTTGACTAAAACCGTGTT-TCGGGG
259 TTTGCAAAATTTTAGCCGAAATCATGTATCATCACGG-TTTTTGACTAAAAACGCGTTCT-GGGG
* *
16166 CCACGA
322 CCCCGG
* *
16172 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTAATCTAGCGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
*
16237 CAGACACATTGGATTTAAGGATTT-TTTTTACAAGCATCTCAATCCGGTTTCGATTTAATTAGAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
*
16301 ATTAATTCGGGAAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATATTTTTGGCG
131 ATTAATTCGGG-AAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCG
* * *
16366 TTGAGTTATATAGATTTTTATGAGTATTGATGGTCAAAAATTGAGGAGAAATGTTTCGGGTCAAC
195 TTGAGTTATAT--ATTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAAT
* * ** *
16431 TTTTGCAAAATTTTAGCAGAAATCATGTACTAACGATCACAGTTTTTGTTTAAAAAACGCGTTCC
258 TTTTGCAAAATTTTAGCCGAAATCATGTA-T--C-ATCACGGTTTTTGACT-AAAAACGCGTTCT
16496 GGGGCCCCGG
318 GGGGCCCCGG
* * * *
16506 CTTAGTTTTGCATGATTTTTGGCATCAAGACTCATTGAAATATCTATATTTATATAACGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
*** * * * *
16571 CA-ACTACACCAGATTTAAGGATTTGTTTTTACGAGTATCTCAATCCAGTTTCGATTTATTTAGA
66 CAGAC-ACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGA
* *
16635 AATTAATTC--GAAAAAAATGAAAAACGATATTTGAAGCGTGAGAAGCCCTTCAATCTTTTTGGC
130 AATTAATTCGGGAAAAAAA-GAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGC
* *
16698 GTTGAGTTA-AGTATTTTTTATGAGTATTG-TGGCCAAAGATTGAGGAGAAATGTTTCAGGCCAA
194 GTTGAGTTATA-TA-TTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAA
* *
16761 TTTTTGCAAAATTTTAGCCGAAATCATGAACTAACCATCACGGTTTTTGACTAAAAACTCGTT-T
257 TTTTTGCAAAATTTTAGCCGAAATCATG---T-ATCATCACGGTTTTTGACTAAAAACGCGTTCT
16825 CGGGGCCCCGG
318 -GGGGCCCCGG
* * * *
16836 TTCAGTTTTGCATGATTTTTGGCGTCAAGACTCAATGATATGTCTATATTCATCT-ACAGAAAGC
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAAC-GAAAGC
* * * * * *
16900 TCAGACACATTGGATTTAAGGATTTATTTTTATGAGCATCTAAATCCAGTTGCGATTTAATTAAA
65 TCAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGA
** *
16965 AATTAATTCTAGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCA
130 AATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCG
* *
17030 TTGAGTTATATATTTTTTATGAGTATTGATGGCCAAAAATTAAGGAGAAATGTTTCAGGTCGATT
195 TTGAGTTATATA-TTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATT
* * * * * *
17095 TTTTCAAAATTTTAGCCGAAATC-TGCTAACCATCACAGTTTTTGATTAAAAACGTGTTCCGGGG
259 TTTGCAAAATTTTAGCCGAAATCATG-T-ATCATCACGGTTTTTGACTAAAAACGCGTTCTGGGG
* *
17159 CTCTGG
322 CCCCGG
* *
17165 CTCAGTTTTGCATGTTTTTTGGCGTCAAGACTCATTGAAATATCTATGTTCATCTAACGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
** *
17230 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCTAGTTTCGATTTAATTAAAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
** * * *
17295 ATTGTTTCGGGAAAAAAAGAAAAACAATAATAGAAGCGTGAGAAGTCCTTCAATAC-TTTTGGCA
131 ATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAAT-CTTTTTGGCG
* * * *
17359 TTGAGTTCTA-ATTCTTTATGAGTATTGATGGCCAAAGATTGAGGAGAAATGCTTCAGGTCAGTT
195 TTGAGTTATATATT-TTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATT
* * ** *
17423 TTGGCAAAATTTTAGCCGAAATCATGT-TCGTCACGG-TTTTGACTAAAAATTCATTCTGGGGCC
259 TTTGCAAAATTTTAGCCGAAATCATGTATCATCACGGTTTTTGACTAAAAACGCGTTCTGGGGCC
*
17486 CCTG
324 CCGG
* * *
17490 CTAAGTTTTGCATTATTTCTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
* * **
17555 CAGATACATTGCATTTAAGGATTTCTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* * *
17620 ATTAATTTGGGAAAAGAAAAGAAAAACTATATTAGAAGCGTGAGAAGTCCTTTAATCTTTTTGGC
131 ATTAATTCGGG-AAA-AAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGC
* * * ***
17685 GATGAGTTATATATTTTTTATGAGTATTG-TAGCAAAAAATTGAGGAGAAATGTTTTTCGTCAAT
194 GTTGAGTTATATA-TTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAAT
* *
17749 TTTTGAAAAATTTTAGCCGAAATCATGTGTTAACACCATCACGGTTTTTGACTAAAAACGCGTTA
258 TTTTGCAAAATTTTAGCCGAAATCA--TG-T---ATCATCACGGTTTTTGACTAAAAACGCGTT-
*
17814 C-GGGGCCCCGA
316 CTGGGGCCCCGG
* * *
17825 CTCAGTTTTGCATGATTTTTGGTGTCAAGA--C-------TATCTATGTTCATCTAACGAAA-CA
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
* *
17880 CAGACACATTGGATTTAAGGATTTGTATTTTACGAGCATCTCAATCTGGTTTCGATTTAATTA-A
66 CAGACACATTGGATTTAAGGATTTCT-TTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGA
17944 AATTAATTCGGGATAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGG
130 AATTAATTCGGG--AAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGG
* * * * *
18009 CGTTGAGTTATATAGTTTTTATGAGTATTGATAGCCAAAAATAT-TGGAAAAATGCTTCGGGTCA
193 CGTTGAGTTATATA-TTTTTATGAGTATTGATGGCCAAAAAT-TGAGGAGAAATGTTTCAGGTCA
* * * *
18073 ATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTGATTAAAACCGCGTTC
256 ATTTTTGCAAAATTTTAGCCGAAATCATGTA-T---CATCACGGTTTTTGACTAAAAACGCGTTC
**
18138 CAGGGCCCCGG
317 TGGGGCCCCGG
* * *
18149 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAGTATCTATATCCATC-AAGCGAAAGG
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAA-CGAAAGC
* * *
18213 TCAGAGACATTGGATTTAAGGATTATTTTTTTCACGAGCATCTCAATTCGGTTTCGATTTAATTA
65 TCAGACACATTGGATTTAAGGATT-TCTTTTT-ACGAGCATCTCAATCCGGTTTCGATTTAATTA
*
18278 GAAATTAATTTGGGAAAAAAA-AGAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTG
128 GAAATTAATTCGGGAAAAAAAGA-AAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTG
* * *
18342 GCGTTCAGTTATATAGTTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGCTTCGGGTCA
192 GCGTTGAGTTATATA-TTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCA
* * * * *
18407 ATTTTTGAAAAATTTTAACAGAAATTATGTACTAACCATCACGGTTTTTGAGTAAAAAACGCGTT
256 ATTTTTGCAAAATTTTAGCCGAAATCATGTA-T---CATCACGGTTTTTGACT-AAAAACGCGTT
18472 CTGGGGCCCCGG
316 CTGGGGCCCCGG
* * * * * *
18484 CTTAGTTTTGTATGATTTTTGGCCTCAAGACTCATTGAAATATCTCTATTTATATAACGAAAGCT
1 CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
* * * * * *
18549 CAGCCACATCGAATTTAAGGATTTC-TTTTACGAGTATCTCAATCCAGTTTCGATTTATTTAGAA
66 CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
* * * *
18613 CTTAATTC--GAAAAAAAGAAAAACGATATTTGAAGCATGAGAAGCCCTTCAATCTTTTTGGCGT
131 ATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
18676 TGAGTTA-AGTATTTTTTATGAGTATTG
196 TGAGTTATA-TA-TTTTTATGAGTATTG
18703 TAGGCAATCA
Statistics
Matches: 2479, Mismatches: 287, Indels: 169
0.84 0.10 0.06
Matches are distributed among these distances:
320 1 0.00
321 72 0.03
322 180 0.07
323 27 0.01
324 85 0.03
325 361 0.15
326 124 0.05
327 155 0.06
328 98 0.04
329 285 0.11
330 211 0.09
331 144 0.06
332 126 0.05
333 87 0.04
334 289 0.12
335 219 0.09
336 15 0.01
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (327 bp):
CTCAGTTTTGCATGATTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAACGAAAGCT
CAGACACATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAA
ATTAATTCGGGAAAAAAAGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGCGT
TGAGTTATATATTTTTATGAGTATTGATGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTT
TGCAAAATTTTAGCCGAAATCATGTATCATCACGGTTTTTGACTAAAAACGCGTTCTGGGGCCCC
GG
Found at i:19427 original size:330 final size:331
Alignment explanation
Indices: 18709--22331 Score: 4861
Period size: 331 Copynumber: 11.0 Consensus size: 331
18699 ATTGTAGGCA
* * * * * * *
18709 ATCACGGTTTTTGACTAAAAACTCATTCTGGGGCGCTGACTCAGTCTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * * *
18774 AAGACTCAATGATATATCTATATTTATCTACCGAAAGCTCA-AAAACATTGGATTTAAGGATTTA
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAA-ATTGGATTTAAGGA-TTA
** * * * * **
18838 -TTTTTACGAGCAACTAAATCCGGTTGCAATTTAATTAAAAATTAATTCG---GGAAAA-AAAAA
129 GTTTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGAAAAA
* * * * * *
18898 CGATATTAGAAGCGTGAGAAGTCCTTC-A-CTTTCTGACATTGAGTTATA-TATTTTTTAAGAGT
194 CGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTA-AGTATTCTTTATGAGT
* * * *
18960 ATTAATGGCAAAAAATTAAGGAGAAATGTTTCAGATCAATTTTTGCAAAATTTTAGCCGAAATC-
258 ATT-GTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
19024 --TACTAACC
322 TGTACTAACC
* * * * * *
19032 ATCACAGTTTTTGAATAAAAACGCGTTCC-GGGCCCTGCCTCAATTTTGCATAATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * *
19096 AAGACTCATTGAAATATCTATGTTCATCTAACGAAAGCTCAGACAAATTGGATTTATGGATTAGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
* * * * *
19161 TTTTACAAGCATCTCAATCTGATTTAGATTTAATTAGAAATTAATTCGAAAAGAAAAAGAAAAAC
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAA-AAAAAGAAAAAC
* *
19226 GATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGATAAATATTCTTTATGAGTAT
195 GATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
* *
19291 TGTGGCCAAAAATTGAGGTGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGTC-AAATCATGT
260 TGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
19355 ACTAACC
325 ACTAACC
* * *
19362 ATCACGGTTTTTGACTAAAAACGCGTTAC-GGGACCCGACTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
*
19426 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAAGCTCAGACATATTGGATTTAAGGATTAG
66 AAGACTCATTGAAATATCTATATTCATCTAGCG-AAAGCTCAGACAAATTGGATTTAAGGATTAG
* * * * *
19491 TTTTTACTAGCATCTCAATCCGGTTTCAATTTAATTAGAAATCAATTCGAAAAAAAAGGAAAAAC
130 TTTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGAAAAAC
* *
19556 GATATTAGAAGCGTGAGAAGCCCTTCAAT-ATTTTGGCGTTGAGTTAAGTATTCTCTATGAGTAT
195 GATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
* * *
19620 TGTGGCGAAAAATTGAGGAGAAATGTTTTAGCTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
260 TGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
19685 ACTAACC
325 ACTAACC
** * *
19692 ATCATAGTTTTCGACTAAAAAAGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * * * * *
19757 AAGACTCATTGAAATACCTATATTCATTTTGCGAAAGCTCTGAAAAATTAGATTTAAGGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
* * * * * *
19822 TTTCACGAGCTTCTCAATCCAGTTTCGATTTATTTTGGAATTAATTCGGGGGAAAAAAAAGAAAA
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC---GAAAAAAAAAGAAAA
* ** * * *
19887 ACGAT-TTCAGAAGCGTTAGAAATCCTTCAATCTTTTCGGCGTTGAGTTACGTATTTTTTATGAG
193 ACGATATT-AGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAG
*
19951 TATTGTGGCCAAAAATTGAGGAGAAATGTTTTAGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
257 TATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
20016 TGTACTAACC
322 TGTACTAACC
20026 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGG-CCCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* *
20090 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
*
20155 TTTTACGAGCTTCTCAATCCGGCTTCGATTTAATTTA-AAATTAATTCG-AAAAAAAAGAAAAAC
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAA-TTAGAAATTAATTCGAAAAAAAAAGAAAAAC
20218 GATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTA
195 GATATTAGAAGCGTGAGAAGCCCTTCAATC-TTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTA
*
20283 TTGTGGCAAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG
259 TTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG
20348 TACTAACC
324 TACTAACC
* *
20356 ATCACTGTTTTCGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* *
20421 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATATAAGGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
* * * * *
20486 TTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTTGGAATTAATTCAGGGAAAAAAAAGAAAAA
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC--GAAAAAAAAAGAAAAA
* * * *
20551 CGAT-TTCAGAAGCGTTAGAAGTCCTTCAATCTTTTCGGCGTTGAGTTACA-TATTTTTTATGAG
194 CGATATT-AGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTA-AGTATTCTTTATGAG
* * *
20614 TATTGTGTCCAAAAATTGAGGAG-AATGTTTTAGGTCAATTTTTGCTAAATTTTAGCCGAAATCA
257 TATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
*
20678 TGTACGT---T
322 TGTAC-TAACC
* * **
20686 AT-A--GTTTTTGAGTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAAC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * * *
20748 AACACTCATTGAAATATTTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAAGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
*
20813 TTTTACGAGCTTCTCAATCCGGCTTCGATTTAATTTA-AAATTAATTCG--AAAAAAAGAAAAAC
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAA-TTAGAAATTAATTCGAAAAAAAAAGAAAAAC
*
20875 GATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
195 GATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
* * * * *
20940 TGTGGCAAAAAATTGAGGAGAATTGTTTCAGGTCAATTTTTGCAAAATTTTATCCGATATCATAT
260 TGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
21005 ACTAACC
325 ACTAACC
* * ** * * * *
21012 ATCACAGTTTTTGATTAAAAACATGTTACGGGG-CCCGGCTTAGTTTTAGTATGA-TTTTGGCAT
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTT-GCATGATTTTTGGCGT
* * * *
21075 CAAGACTCATTGAAATATCCATATTCATCTAGCGAAAAGGTCTGACATATTGGATTTAAGGATTA
65 CAAGACTCATTGAAATATCTATATTCATCTAGCG-AAAGCTCAGACAAATTGGATTTAAGGATTA
** *
21140 GTTTTTACGAGCACCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGATAAA
129 GTTTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGAAAAA
* * * * *
21205 CGATATTAGAAGCGTGAAAAGCACTTCAATCTTCTCGGCGTTGAGATAAGTATTCTTTATGAGTA
194 CGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTA
21270 TTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG
259 TTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG
21335 TACTAACC
324 TACTAACC
* ** * **
21343 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCTGTTTTGCATGATTTTTGGCAAC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * *
21408 AACACTCATTGAAATATTTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAAGAGTTA-
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGA-TTAG
* *
21472 TTTTTACGAGCTTTTCAATCCGGCTTCGATTTAATTTA-AAATT-ATTACGAAAAAAAAAGAAAA
130 TTTTTACGAGCTTCTCAATCCGGTTTCGATTTAA-TTAGAAATTAATT-CGAAAAAAAAAGAAAA
*
21535 ACGATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGT
193 ACGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGT
* *
21600 ATTCTGGCCAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
258 ATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
21665 GTACT-A-C
323 GTACTAACC
* * * * *
21672 ATCACGGTTTTTGATTAAAAACGCATTCTGGGGCTCCGGCTCAGTTTTGCATAATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* *
21737 AAGACTCATTGAAATATCTATATTTATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTACT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
* ** * **
21802 TTTTACGAGCTTCTCAATCCAGTTTCGATTTCTTTAGGAATTAATTCAGGTAAAAAAAGAAAAAC
131 TTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAAAGAAAAAC
* * * *
21867 GATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGAGTTGAGTTATA-TATTTTTTATGAATA
195 GATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTA-AGTATTCTTTATGAGTA
* * * * * *
21931 TTTTGGCCAAAAATTGAGG-GAAAAT-TTTCAAGACAATTTCTGCAAAATTTTAGCTGACATCAT
259 TTGTGGCCAAAAATTGAGGAG-AAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
*
21994 GGACTAACC
323 GTACTAACC
* * * *
22003 ATCACGGTTTTCGACTTAAAATG-GTTTCCAGGG-CCCGGCTCAGTTTTGCATGATTTTTGGCGT
1 ATCACGGTTTTTGACTAAAAACGCG-TTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGT
* * *
22066 CAAGACTCATTGAAATATCTATATTTATCTAGTGAAAGCTCAGACAAATTGGATTTAAGGATTTG
65 CAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAG
* * * *
22131 TTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTTGAAATTAATTCAAAAAAAAAAAGAAATA
130 TTTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAAAGAAAAA
* * ** *
22196 CGATATTGGATGCGTGAGAAGCCCTTCAATCTTTTTCTCGTTGAGTTATA-TATTTTTTATGAGT
194 CGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTA-AGTATTCTTTATGAGT
** *
22260 ATTGTGTTCAAAAATTGAGGATAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
258 ATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
22325 GTACTAA
323 GTACTAA
22332 TCTATATTCA
Statistics
Matches: 2926, Mismatches: 311, Indels: 118
0.87 0.09 0.04
Matches are distributed among these distances:
321 3 0.00
322 120 0.04
323 115 0.04
324 42 0.01
325 1 0.00
326 6 0.00
327 190 0.06
328 113 0.04
329 432 0.15
330 705 0.24
331 706 0.24
332 103 0.04
333 218 0.07
334 172 0.06
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (331 bp):
ATCACGGTTTTTGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTAGT
TTTTACGAGCTTCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAAGAAAAACG
ATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATT
GTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
CTAACC
Found at i:21684 original size:660 final size:658
Alignment explanation
Indices: 18709--22331 Score: 4897
Period size: 660 Copynumber: 5.5 Consensus size: 658
18699 ATTGTAGGCA
* * * * * *
18709 ATCACGGTTTTTGACTAAAAACTCATTCTGGGGCGCTGACTCAGTCTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * *
18774 AAGACTCAATGATATATCTATATTTATCTACCGAAAGCTCAA-A-AACATTGGATTTAAGGATTT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCT-AAGACAA-ATTGGATTTAAGGATTT
* * * * **
18837 ATTTTTACGAGCAACTAAATCCGG-TTGCAATTTAATTAAAAATTAATTCG--GGAAAA-AAAAA
129 ATTTTTACGAGCATCTCAATCCGGCTT-CGATTTAATTTAAAATTAATTCGAAAAAAAAGAAAAA
* * * * *
18898 CGATATTAGAAGCGTGAGAAGTCCTTC-A-C-TTTCTGACATTGAGTTATA-TATTTTTTAAGAG
193 CGATATTAGAAGCGTGAGAAGCCCTTCAATCATTT-TGGCGTTGAGTTA-AGTATTCTTTATGAG
* *
18959 TATTAATGGCAAAAAATTAAGGAGAAATGTTTC-AGATCAATTTTTGCAAAATTTTAGCCGAAAT
256 TATT-GTGGCAAAAAATTGAGGAGAAATGTTTCAAG-TCAATTTTTGCAAAATTTTAGCCGAAAT
* * * * *
19023 C---TACTAACCATCACAGTTTTTGAATAAAAACGCGTTCCGGGCCCTGCCTCAATTTTGCATAA
319 CATGTACTAACCATCACAGTTTTTGACTAAAAACGCGTTCGGGGCCC-GGCTCAGTTTTGCATGA
* *
19085 TTTTTGGCGTCAAGACTCATTGAAATATCTATGTTCATCTAACGAAAGCTCAGACAAATTGGATT
383 TTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATT
* * * * * * * *
19150 TATGGATTAGTTTTTACAAGCATCTCAAT-CTGATTTAGATTTAATTAGAAATTAATTC-GAAAA
448 TAAGGATTAGTTTTTACGAGCTTCTCAATCCAG-TTTCGATTTATTTAGGAATTAATTCGGGAAA
* *
19213 GAAAAAGAAAAACGATATTAGAAGCGTGAGAAGCCCTTCAATCTTTTTGGCGTTGAGATAAATAT
512 -AAAAAGAAAAACGATATTAGAAGCGTGAGAAG-CCTTCAATCTTTTCGGCGTTGAG-TTAATAT
* *
19278 TCTTTATGAGTATTGTGGCCAAAAATTGAGGTGAAATGTTTCAGGTCAATTTTTGCAAAATTTTA
574 TTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTA
*
19343 GTC-AAATCATGTACTAACC
639 GCCGAAATCATGTACTAACC
* * *
19362 ATCACGGTTTTTGACTAAAAACGC-GT-TACGGGACCCGACTCAGTTTTGCATGATTTTTGGCGT
1 ATCACGGTTTTTGACTAAAAACGCATTCTA-GGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGT
* *
19425 CAAGACTCATTGAAATATCTATATTCATCTAGCGAAAAGCTCAGACATATTGGATTTAAGGA-TT
65 CAAGACTCATTGAAATATCTATATTCATCTAGCG-AAAGCTAAGACAAATTGGATTTAAGGATTT
* * * *
19489 AGTTTTTACTAGCATCTCAATCCGGTTTCAATTTAA-TTAGAAATCAATTCGAAAAAAAAGGAAA
129 A-TTTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTA-AAATTAATTCGAAAAAAAA-GAAA
*
19553 AACGATATTAGAAGCGTGAGAAGCCCTTCAAT-ATTTTGGCGTTGAGTTAAGTATTCTCTATGAG
191 AACGATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAG
* *
19617 TATTGTGGCGAAAAATTGAGGAGAAATGTTT-TAGCTCAATTTTTGCAAAATTTTAGCCGAAATC
256 TATTGTGGCAAAAAATTGAGGAGAAATGTTTCAAG-TCAATTTTTGCAAAATTTTAGCCGAAATC
* * *
19681 ATGTACTAACCATCATAGTTTTCGACTAAAAAAGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGA
320 ATGTACTAACCATCACAGTTTTTGACTAAAAACGCGTT-CGGGG-CCCGGCTCAGTTTTGCATGA
* * * * * *
19746 TTTTTGGCGTCAAGACTCATTGAAATACCTATATTCATTTTGCGAAAGCTCTGAAAAATTAGATT
383 TTTTTGGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATT
* * *
19811 TAAGGATTTGTTTTCACGAGCTTCTCAATCCAGTTTCGATTTATTTTGGAATTAATTCGGGGGAA
448 TAAGGATTAGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTAGGAATTAATTC--GGGAA
* * *
19876 AAAAAAGAAAAACGAT-TTCAGAAGCGTTAGAAATCCTTCAATCTTTTCGGCGTTGAGTTACGTA
511 AAAAAAGAAAAACGATATT-AGAAGCGTGAG-AAGCCTTCAATCTTTTCGGCGTTGAGTTA-ATA
*
19940 TTTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTTAGGTCAATTTTTGCAAAATTTT
573 TTTTTTATGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTT
20005 AGCCGAAATCATGTACTAACC
638 AGCCGAAATCATGTACTAACC
* * *
20026 ATCACGGTTTTTGACTAAAAACGCGTTC-CGGGGCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
*
20090 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTAT
*
20155 TTTTACGAGCTTCTCAATCCGGCTTCGATTTAATTTAAAATTAATTCGAAAAAAAAGAAAAACGA
131 TTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTAAAATTAATTCGAAAAAAAAGAAAAACGA
20220 TATTAGAAGCGTGAGAAGCCCTTCAATCATTTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATT
196 TATTAGAAGCGTGAGAAGCCCTTCAATCA-TTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATT
*
20285 GTGGCAAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
260 GTGGCAAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
* *
20350 CTAACCATCACTGTTTTCGACTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTT
325 CTAACCATCACAGTTTTTGACTAAAAACGCGTT-CGGGG-CCCGGCTCAGTTTTGCATGATTTTT
*
20415 GGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATATAAGG
388 GGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGG
* *
20480 ATTTGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTTGGAATTAATTCAGGGAAAAAAAA
453 ATTAGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTAGGAATTAATTC-GGGAAAAAAAA
*
20545 GAAAAACGAT-TTCAGAAGCGTTAGAAGTCCTTCAATCTTTTCGGCGTTGAGTTACATATTTTTT
517 GAAAAACGATATT-AGAAGCGTGAGAAG-CCTTCAATCTTTTCGGCGTTGAGTTA-ATATTTTTT
* * *
20609 ATGAGTATTGTGTCCAAAAATTGAGGAG-AATGTTTTAGGTCAATTTTTGCTAAATTTTAGCCGA
579 ATGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGA
*
20673 AATCATGTACGT---T
644 AATCATGTAC-TAACC
* * * **
20686 AT-A--GTTTTTGAGTAAAAACGCGTT-TCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCAA
1 ATCACGGTTTTTGACTAAAAACGCATTCT-AGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGT
* * * *
20747 CAACACTCATTGAAATATTTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAAGATTTG
65 CAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTA
*
20812 TTTTTACGAGCTTCTCAATCCGGCTTCGATTTAATTTAAAATTAATTCG-AAAAAAAGAAAAACG
130 TTTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTAAAATTAATTCGAAAAAAAAGAAAAACG
20876 ATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATT
195 ATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATT
* * * * *
20941 GTGGCAAAAAATTGAGGAGAATTGTTTCAGGTCAATTTTTGCAAAATTTTATCCGATATCATATA
260 GTGGCAAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTA
* ** * *
21006 CTAACCATCACAGTTTTTGATTAAAAACATGTTACGGGGCCCGGCTTAGTTTTAGTATGA-TTTT
325 CTAACCATCACAGTTTTTGACTAAAAACGCGTT-CGGGGCCCGGCTCAGTTTT-GCATGATTTTT
* * * * *
21070 GGCATCAAGACTCATTGAAATATCCATATTCATCTAGCGAAAAGGTCTGACATATTGGATTTAAG
388 GGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCG-AAAGCTCAGACAAATTGGATTTAAG
** * * * *
21135 GATTAGTTTTTACGAGCACCTCAATCCGGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAAA
452 GATTAGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTAGGAATTAATTCGGGAAAAAAAA
* * * * *
21199 GATAAACGATATTAGAAGCGTGAAAAGCACTTCAATCTTCTCGGCGTTGAGATAAGTATTCTTTA
517 GAAAAACGATATTAGAAGCGTGAGAAGC-CTTCAATCTTTTCGGCGTTGAGTTAA-TATTTTTTA
21264 TGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAA
580 TGAGTATTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAA
21329 ATCATGTACTAACC
645 ATCATGTACTAACC
* **
21343 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCTGTTTTGCATGATTTTTGGCAAC
1 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * *
21408 AACACTCATTGAAATATTTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAAGAGTTAT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTAT
* *
21473 TTTTACGAGCTTTTCAATCCGGCTTCGATTTAATTTAAAATT-ATTACGAAAAAAAAAGAAAAAC
131 TTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTAAAATTAATT-CG-AAAAAAAAGAAAAAC
21537 GATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
194 GATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTAT
* *
21602 TCTGGCCAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
259 TGTGGCAAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGT
* * * *
21667 ACT-A-CATCACGGTTTTTGATTAAAAACGCATTCTGGGGCTCCGGCTCAGTTTTGCATAATTTT
324 ACTAACCATCACAGTTTTTGACTAAAAACGCGTTC-GGGGC-CCGGCTCAGTTTTGCATGATTTT
*
21730 TGGCGTCAAGACTCATTGAAATATCTATATTTATCTAGCGAAAGCTCAGACAAATTGGATTTAAG
387 TGGCGTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAG
* * * *
21795 GATTACTTTTTACGAGCTTCTCAATCCAGTTTCGATTTCTTTAGGAATTAATTCAGGTAAAAAAA
452 GATTAGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTAGGAATTAATTCGGGAAAAAAAA
* *
21860 GAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTTTTTGGAGTTGAGTTATATATTTTTTA
517 GAAAAACGATATTAGAAGCGTGAGAAG-CCTTCAATCTTTTCGGCGTTGAGTTA-ATATTTTTTA
* * * * * *
21925 TGAATATTTTGGCCAAAAATTGAGG-GAAAAT-TTTCAAGACAATTTCTGCAAAATTTTAGCTGA
580 TGAGTATTGTGGCCAAAAATTGAGGAG-AAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGA
* *
21988 CATCATGGACTAACC
644 AATCATGTACTAACC
* * * ** *
22003 ATCACGGTTTTCGACTTAAAATGGTTTCCAGGG-CCCGGCTCAGTTTTGCATGATTTTTGGCGTC
1 ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
* * * *
22067 AAGACTCATTGAAATATCTATATTTATCTAGTGAAAGCTCAGACAAATTGGATTTAAGGATTTGT
66 AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTAT
* * * *
22132 TTTTACGAGCATCTCAATCCGGTTTCGATTTAATTTGAAATTAATTCAAAAAAAAAAAGAAATAC
131 TTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTAAAATTAATTC--GAAAAAAAAGAAAAAC
* * * ** *
22197 GATATTGGATGCGTGAGAAGCCCTTCAATCTTTTTCTCGTTGAGTTATA-TATTTTTTATGAGTA
194 GATATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTA-AGTATTCTTTATGAGTA
* * *
22261 TTGTGTTC-AAAAATTGAGGATAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
258 TTGTG-GCAAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCAT
22325 GTACTAA
322 GTACTAA
22332 TCTATATTCA
Statistics
Matches: 2674, Mismatches: 227, Indels: 130
0.88 0.07 0.04
Matches are distributed among these distances:
651 1 0.00
652 67 0.03
653 84 0.03
654 91 0.03
655 104 0.04
656 202 0.08
657 154 0.06
658 169 0.06
659 132 0.05
660 499 0.19
661 266 0.10
662 234 0.09
663 286 0.11
664 383 0.14
665 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (658 bp):
ATCACGGTTTTTGACTAAAAACGCATTCTAGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTC
AAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTAAGACAAATTGGATTTAAGGATTTAT
TTTTACGAGCATCTCAATCCGGCTTCGATTTAATTTAAAATTAATTCGAAAAAAAAGAAAAACGA
TATTAGAAGCGTGAGAAGCCCTTCAATCATTTTGGCGTTGAGTTAAGTATTCTTTATGAGTATTG
TGGCAAAAAATTGAGGAGAAATGTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTAC
TAACCATCACAGTTTTTGACTAAAAACGCGTTCGGGGCCCGGCTCAGTTTTGCATGATTTTTGGC
GTCAAGACTCATTGAAATATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATT
AGTTTTTACGAGCTTCTCAATCCAGTTTCGATTTATTTAGGAATTAATTCGGGAAAAAAAAGAAA
AACGATATTAGAAGCGTGAGAAGCCTTCAATCTTTTCGGCGTTGAGTTAATATTTTTTATGAGTA
TTGTGGCCAAAAATTGAGGAGAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATG
TACTAACC
Found at i:22522 original size:248 final size:248
Alignment explanation
Indices: 22082--22579 Score: 836
Period size: 248 Copynumber: 2.0 Consensus size: 248
22072 TCATTGAAAT
* *
22082 ATCTATATTTATCTAGTGAAAGCTCAGACAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTC
1 ATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTC
* *
22147 AATCCGGTTTCGATTTAATTTGAAATTAATTCAAAAAAAAAAAGAAATACGATATTGGATGCGTG
66 AATCCGGTTTCGATTTAATTTGAAATTAATTC-AAAAAAAAAAGAAAAACGATATTAGATGCGTG
* * * * **
22212 AGAAGCCCTTCAATCTTTTTCTCGTTGAGTTATATATTTTTTATGAGTATTGTGTTCAAAAATTG
130 AGAAGCCCTTCAATCTTTTTCGCATTGAGTTATATATTCTTTATGAGTATTCTGGCCAAAAATTG
* * *
22277 AGGATAAATGTTTCAGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTA
195 AGGAGAAATGTTTCAAGTCAATTTATGCAAAATTTTAGCCGAAATCATGTACTA
22331 ATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTTAAGGATTTGTTTTTACGAGCATCT
1 ATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGA-TTTAAGGATTTGTTTTTACGAGCATCT
*
22396 CAATCCGGTTTCGATTTAATTTGAAATTAATTC-GAAAAAAAAGAAAAACGATATTAGATGCGTG
65 CAATCCGGTTTCGATTTAATTTGAAATTAATTCAAAAAAAAAAGAAAAACGATATTAGATGCGTG
*
22460 AGAAGCCCTTCAATCTTTTTGGCATTGAGTTATATATTCTTTATGAGTATTCTGGCCAAAAATTG
130 AGAAGCCCTTCAATCTTTTTCGCATTGAGTTATATATTCTTTATGAGTATTCTGGCCAAAAATTG
22525 AGGAGAAATGTTTCAAGTCAATTTATGCAAAATTTTAGCCGAAATCATGTACTA
195 AGGAGAAATGTTTCAAGTCAATTTATGCAAAATTTTAGCCGAAATCATGTACTA
22579 A
1 A
22580 CCATCATGGT
Statistics
Matches: 233, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
248 138 0.59
249 35 0.15
250 60 0.26
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (248 bp):
ATCTATATTCATCTAGCGAAAGCTCAGACAAATTGGATTTAAGGATTTGTTTTTACGAGCATCTC
AATCCGGTTTCGATTTAATTTGAAATTAATTCAAAAAAAAAAGAAAAACGATATTAGATGCGTGA
GAAGCCCTTCAATCTTTTTCGCATTGAGTTATATATTCTTTATGAGTATTCTGGCCAAAAATTGA
GGAGAAATGTTTCAAGTCAATTTATGCAAAATTTTAGCCGAAATCATGTACTA
Done.