Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001560.1 Hibiscus syriacus cultivar Beakdansim tig00003083_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: 44755
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:11604 original size:29 final size:30
Alignment explanation
Indices: 11552--11611 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
11542 AAAACACAAG
* *
11552 ACAAGGCAAAAGGAAATCAAGTTAGTAAAA
1 ACAAGACAAAAAGAAATCAAGTTAGTAAAA
*
11582 ACAAGACAAAAAG-AATCAAGTTAGTTAAA
1 ACAAGACAAAAAGAAATCAAGTTAGTAAAA
11611 A
1 A
11612 TGATTATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.58, C:0.10, G:0.17, T:0.15
Consensus pattern (30 bp):
ACAAGACAAAAAGAAATCAAGTTAGTAAAA
Found at i:16199 original size:78 final size:78
Alignment explanation
Indices: 16063--16395 Score: 504
Period size: 78 Copynumber: 4.3 Consensus size: 78
16053 GCCGCCGTTA
16063 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
1 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
*
16128 AAAGACGCTATTC
66 AAAGACGCTGTTC
* * * *
16141 AATACCTCCTCTATCAAGATATTTTTCATTAGGTAAAAAGCAAGCGTGAAATACGAAAGGAGATG
1 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
16206 AAAGACGCTGTTC
66 AAAGACGCTGTTC
*
16219 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAACGTGAAAGAAGAAAGGAGATG
1 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
*
16284 AAAGACTCTGTTC
66 AAAGACGCTGTTC
* * * * * * * *
16297 AACATCTCCTCTATCAAGATACTTTTCATGAGGTAAAAGGAAAGCGGGAAAGAATAAAAGAAATG
1 AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
16362 AAAGACGCTGTTC
66 AAAGACGCTGTTC
** *
16375 AATGCCTCGTCTATCAAGATA
1 AACACCTCCTCTATCAAGATA
16396 TTAACAAAAT
Statistics
Matches: 230, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 230 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (78 bp):
AACACCTCCTCTATCAAGATACTTTTCATTAGGTAAAAAGCAAGCGTGAAAGAAGAAAGGAGATG
AAAGACGCTGTTC
Found at i:18795 original size:823 final size:815
Alignment explanation
Indices: 16792--21410 Score: 5458
Period size: 823 Copynumber: 5.7 Consensus size: 815
16782 AATTGTTTAT
*
16792 GTTTGTTTGTAATTCATTAAAGTCAGTAATTCAATAAAAAAAATACATTA-TTCCTTTT-TGTTT
1 GTTTGTTTGTAATTCATTAAAGTCAGT-AGTCAAT-AAAAAAATACATTAGTTCCTTTTCT-TTT
*
16855 CATCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTACATCTTGAAAAGTATCTAGAGAGAG
63 CATCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTAC-TCTTGAAAAGTATCTTGAGAGAG
* * * *
16920 GAGGCGTTGAACGGCGTCGTCAGGATCCGTATTACCA-TTTTTAATGAATCATAAAGAGATTTTT
127 GAGGCGTTGAACGGCGTCGCCAGGATCCATATTA-CAGTTTTTAATGAATCTTAAAGAGATTGTT
* * * * * *
16984 AATAATAGTTGGACGAAGTGAGAGACCTTCGTCGTCCTTAGAGACTGTAATATGGACCGTAATGG
191 AATAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGA
* * * * *
17049 CGCCGCTCAAAGCCTACTCTATCAAGATACTTTTCATCAGGTAAAATGCAAA-CGTGAAAGAACA
256 CGCCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAA-GGAAAGCGGGAAAGAACA
* *
17113 AAAGAGATGAAAGACGCCGTTCAACGCCTCCTCTATCAAGATGCTAACAAAATTGTATATGTTTT
320 AAAGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATG-TTT
*
17178 TCTTGTAGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTAT
384 TCTTGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTAT
*
17243 ATCCATATAAGAGGGAATCCTAGTTGATATAAGATGATCTTTTTTTAACACTCCAAAATTTGGTT
449 ATCCATATAAGAGGGAATCCTAGTTGATGTAAGATGATC-TTTTTTAACACTCCAAAATTTGGTT
* ** * * * *
17308 TAGAAATTTTCTGATGTCTGATGATTAGAAAATAATTTCTGAAGGAATAAATTATGAAAATGAGT
513 TAGAATTTTTCTGACATATGATGATCAGAAAATAATTT-TGAAGGATTAAATTATGAAAATGAAT
** * * * *
17373 CTTGTAAAAAGAAACTAGTTTGAATCA-AATATGCTCTGATTAGAAATTTGAATAAGAATTAAAA
577 CTCCTAAAAAGAAACTAGTTTGAA-AAGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAA
* * * * * * *
17437 TATTC--TTAAAAAT-TTTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATGCTAGAGATATGAC
641 TATGCAAATAAAAATGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAGATGTGGC
17499 ATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTA
706 ATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTA
* * *
17564 AATATTTACGTTTTAGATTATTATATTTGGGCTATAAAATACCCAA
771 ATTATTTATGTTTTAGGTT-TTATATTTGGGCTATAAAATACCCAA
* * *
17610 GTTTGTTTGTAATTCATTAAGGTCATTAAGT-AA-AAAAAAATACATTAGTTCCTTTACTTTTCA
1 GTTTGTTTGTAATTCATTAAAGTCAGT-AGTCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
* * *
17673 TCTCTTTTCTTCTTTTAGTCTTTCCCGTTTTTCTTTTTACCTCTTGAAAAGTACCTTGAGAGAGG
65 TCTCTTTTCTTCTTTGAGTCTTTCCCG-TTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAGG
* * * * * * * *
17738 AGGCGTTGAATGACGTTGCTAGGTTCCATATTTCAGTCTTTAATTAATCTTAAAGAGATTGTTAA
128 AGGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAA
* * * * * ** * *
17803 TAATAGTTGTATGGACCGAGAGATCTTCACTATCCTTGGAGGCTGTAATATGGACCGTAACGACG
193 TAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACG
* * * * * * ** *
17868 CTGTTCAGCACCTCCTCTATCAAGGTACTTTTCATAAGGTAAAAAGCGAG-GGAGAAAGAAGAAA
258 CCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAGGAAAGCGG-GAAAGAACAAA
* * *
17932 AGAGATGAAAGATGCCGTTCAATGACTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTGT
322 AGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCT
17997 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
387 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
* * * * *
18062 CATATAAGAGGTAATACTAGTTGATGTAAGATGATC-TTTTTAATACTCCGAAATTTAGTTTAGA
452 CATATAAGAGGGAATCCTAGTTGATGTAAGATGATCTTTTTTAACACTCCAAAATTTGGTTTAGA
*
18126 ATTTTTCTGACATATGATGATCAGAAAATTAATTTTCAAGGATTAAATTATG-AAATGAATCTCC
517 ATTTTTCTGACATATGATGATCAGAAAA-TAATTTTGAAGGATTAAATTATGAAAATGAATCTCC
* * * * *
18190 TAAAATGAAACTAATTTGAAAAGAATATGTTCTGGTTCGAAATTGGAAAAAGGATTAAAATATGC
581 TAAAAAGAAACTAGTTTGAAAAGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAATATGC
* * *
18255 AAAAAAAAAAAAAATTGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTACTAGAGATGTGG
646 -----AAATAAAAA-TGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAGATGTGG
* *
18320 CATATGAGATTTGATGTACATCATTTATGTTTTAATCAATCACATTCAAGTTAAAAAATATCTCT
705 CATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCT
*
18385 AATTATTTATGTTTTGGGTATTTATATTTGGGCTATAAAATACCCAA
770 AATTATTTATGTTTTAGGT-TTTATATTTGGGCTATAAAATACCCAA
*
18432 GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAATAAAACAATACATTAGTTCCTTTTCTTTTCA
1 GTTTGTTTGTAATTCATTAAAGTCAGTAG-TCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
* * *
18497 TCTCTTTTCTTCTTTGAGTCTTTCCTGTTTGATTTTTAGCTCTTGAAAACTATCTTGAGAGAGGA
65 TCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAGGA
* * *
18562 GGCATTGAACGGCGTCGCCAGGGTCCATATTACAGTTTTTAATGAATTTTAAAGAGATTGTTAAT
129 GGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAAT
* **
18627 AATAGTTGCACGAACTGAGAGATCTTTGCCGTCCTTAGAGACTGTAATATGGATTGTAACGACGC
194 AATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACGC
* * * * *
18692 CGTTCAACGCCTTCTATATTAAGATACTTTTCATGAGGTAAAAGGAAAGCGGGAAAGAATAAAAG
259 CGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAGGAAAGCGGGAAAGAACAAAAG
* * * *
18757 AAATGAAAGACGCTGTTCAATGCCTCGTCTATCAAGATATTAACAAAATTGTATATGTTTTCTTG
324 AGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTG
* * *
18822 TTGTTACATGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTTTATTTTCTTTTATATCCA
389 TTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATCCA
* *
18887 TATAAGAGGGAATCCTAGTTGATGTAAGATGATATTTTTTTAAGACTCCAAAATTTGGTTTAGAA
454 TATAAGAGGGAATCCTAGTTGATGTAAGATGAT-CTTTTTTAACACTCCAAAATTTGGTTTAGAA
* *
18952 TTTTTCTGAC-------G-TC------------T--AGGATTAAATTATGAAAACGAATCTCTTA
518 TTTTTCTGACATATGATGATCAGAAAATAATTTTGAAGGATTAAATTATGAAAATGAATCTCCTA
**
18995 AAAAGAAACTAGTTTGAATCGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAATATGCTA
583 AAAAGAAACTAGTTTGAAAAGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAATATGC-A
* * *
19060 AATATAAA-GTTTGAAAGCAAAATAAGAAAGATGAAAGTTGGAGTGCCAGAGATGTGGCATATGA
647 AATAAAAATGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAGATGTGGCATATGA
* *
19124 GATTTGATGTACATCGTTTAAGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAATTGTT
712 GATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAATTATT
19189 TATG-TTT--GTTTGTA-A-TT---C-AT----TA---AA
777 TATGTTTTAGGTTT-TATATTTGGGCTATAAAATACCCAA
** * * * ** * * * * * * * *
19213 ----GTCAGTAATTCAATAAA---A--A--AAATACATTATTCCTTTTTGTTTCATCTCTTTTCT
1 GTTTGTTTGTAATTCATTAAAGTCAGTAGTCAATAAAAAAATAC-ATTAGTTCCTTTTCTTTTCA
* * * ** * ***** * * * *
19267 TCT-TTGAGTCTTTCCCGTTTG-CT-TTTTACATCTTGAAAAGTA-TCTAGAGAGAGGAGGCGTT
65 TCTCTT---T-TCT-TC-TTTGAGTCTTTCCCGT-TTGCTTTTTACTCTTGA-AAAGTA-TC-TT
* * *
19328 --GA-A------------CGGCGTCGTCAGGATCCGTATTACCA-TTTTTAATGAATCATAAAGA
120 GAGAGAGGAGGCGTTGAACGGCGTCGCCAGGATCCATATTA-CAGTTTTTAATGAATCTTAAAGA
* * * * *
19377 GATTTTTAATAATAGTTGGACGAAGTGAGAGACCTTCGTCGTCCTTAGAGACTGTAATATGGACC
184 GATTGTTAATAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACC
* * * * * * *
19442 GTAATGGCGCCGCTCAAAGCCTACTCTATCAAGATACTTTTCATCAGGTAAAATGCAAA-CGTGA
249 GTAACGACGCCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAA-GGAAAGCGGGA
* *
19506 AAGAACAAAAGAGATGAAAGACGCCGTTCAACGCCTCCTCTATCAAGATGCTAACAAAATTGTAT
313 AAGAACAAAAGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTAT
*
19571 ATGTTTTTCTTGTAGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTT
378 ATG-TTTTCTTGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTT
*
19636 CTTTTATATCCATATAAGAGGGAATCCTAGTTGATATAAGATGATCTTTTTTTAACACTCCAAAA
442 CTTTTATATCCATATAAGAGGGAATCCTAGTTGATGTAAGATGATC-TTTTTTAACACTCCAAAA
* ** * * *
19701 TTTGGTTTAGAAATTTTCTGATGTCTGATGATTAGAAAATAATTTCTGAAGGAAT-AATTATGAA
506 TTTGGTTTAGAATTTTTCTGACATATGATGATCAGAAAATAATTT-TGAAGGATTAAATTATGAA
* ** * * * *
19765 AATGAGTCTTGT-AAAAGAAACTAGTTTGAATCA-AATATGCTCTGATTAGAAATTTGAATAAGA
570 AATGAATCTCCTAAAAAGAAACTAGTTTGAA-AAGAATATGTTCTGATTCGAAATTTGAATAAGG
* * * * *
19828 ATTAAAATATTC---TTAAAAT-TTTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATGCTAGAG
634 ATTAAAATATGCAAATAAAAATGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAG
* *
19889 ATATGACATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAAT
699 ATGTGGCATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAAT
* * *
19954 ATCTCTAAATATTTACGTTTTAGATTATTATATTTGGGCTATAAAATACCCAA
764 ATCTCTAATTATTTATGTTTTAGGTT-TTATATTTGGGCTATAAAATACCCAA
* * *
20007 GTTTGTTTGTAATTCATTAAGGTCATTAAGT-AA-AAAAAAATACATTAGTTCCTTTACTTTTCA
1 GTTTGTTTGTAATTCATTAAAGTCAGT-AGTCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
* * *
20070 TCTCTTTTCTTCTTTTAGTCTTTCCCGTTTTTCTTTTTACCTCTTGAAAAGTACCTTGAGAGAGG
65 TCTCTTTTCTTCTTTGAGTCTTTCCCG-TTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAGG
* * * * * * * *
20135 AGGCGTTGAATGACGTTGCTAGGTTCCATATTTCAGTCTTTAATTAATCTTAAAGAGATTGTTAA
128 AGGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAA
* * * * * ** * *
20200 TAATAGTTGTATGGACCGAGAGATCTTCACTATCCTTGGAGGCTGTAATATGGACCGTAACGACG
193 TAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACG
* * * * * * ** *
20265 CTGTTCAGCACCTCCTCTATCAAGGTACTTTTCATAAGGTAAAAAGCGAG-GGAGAAAGAAGAAA
258 CCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAGGAAAGCGG-GAAAGAACAAA
* * *
20329 AGAGATGAAAGATGCCGTTCAATGACTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTGT
322 AGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCT
20394 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
387 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
* * * * *
20459 CATATAAGAGGTAATACTAGTTGATGTAAGATGATC-TTTTTAATACTCCGAAATTTAGTTTAGA
452 CATATAAGAGGGAATCCTAGTTGATGTAAGATGATCTTTTTTAACACTCCAAAATTTGGTTTAGA
*
20523 ATTTTTCTGACATATGATGATCAGAAAATTAATTTTCAAGGATTAAATTATG-AAATGAATCTCC
517 ATTTTTCTGACATATGATGATCAGAAAA-TAATTTTGAAGGATTAAATTATGAAAATGAATCTCC
* * * * *
20587 TAAAATGAAACTAATTTGAAAAGAATATGTTCTGGTTCGAAATTGGAAAAAGGATTAAAATATGC
581 TAAAAAGAAACTAGTTTGAAAAGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAATATGC
* * *
20652 AAAAAAAAAAAAAAATTGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTACTAGAGATGTG
646 ------AAATAAAAA-TGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAGATGTG
* *
20717 GCATATGAGATTTGATGTACATCATTTATGTTTTAATCAATCACATTCAAGTTAAAAAATATCTC
704 GCATATGAGATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTC
*
20782 TAATTATTTATGTTTTGGGTATTTATATTTGGGCTATAAAATACCCAA
769 TAATTATTTATGTTTTAGGT-TTTATATTTGGGCTATAAAATACCCAA
*
20830 GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAATAAAACAATACATTAGTTCCTTTTCTTTTCA
1 GTTTGTTTGTAATTCATTAAAGTCAGTAG-TCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
* * *
20895 TCTCTTTTCTTCTTTGAGTCTTTCCTGTTTGATTTTTAGCTCTTGAAAACTATCTTGAGAGAGGA
65 TCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAGGA
* * *
20960 GGCATTGAACGGCGTCGCCAGGGTCCATATTACAGTTTTTAATGAATTTTAAAGAGATTGTTAAT
129 GGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAAT
* **
21025 AATAGTTGCACGAACTGAGAGATCTTTGCCGTCCTTAGAGACTGTAATATGGATTGTAACGACGC
194 AATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACGC
* * * * *
21090 CGTTCAACGCCTTCTATATTAAGATACTTTTCATGAGGTAAAAGGAAAGCGGGAAAGAATAAAAG
259 CGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAGGAAAGCGGGAAAGAACAAAAG
* * * *
21155 AAATAAAAGACGCCGTTCAATGCCTCCTCTATCAAGATATTAACAAATTTGTATATGTTTTCTTG
324 AGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTG
21220 TTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTC-TTTATATCCA
389 TTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATCCA
** * * *
21284 TATAAGAGATAATCCTGGTTGATGTAAGATGATCTTTTATTAACACTCCAAAATTT-GATTAGAT
454 TATAAGAGGGAATCCTAGTTGATGTAAGATGATCTTTT-TTAACACTCCAAAATTTGGTTTAGAA
* *
21348 TTTTTCTGA-AGTTTGATGATCATAAAATAATTTTTGAAGGATTAAATTATGAAAATGAATCTC
518 TTTTTCTGACA-TATGATGATCAGAAAATAA-TTTTGAAGGATTAAATTATGAAAATGAATCTC
21411 GTTTTCTTTT
Statistics
Matches: 3202, Mismatches: 454, Indels: 283
0.81 0.12 0.07
Matches are distributed among these distances:
760 205 0.06
761 144 0.04
768 1 0.00
769 11 0.00
770 17 0.01
772 8 0.00
773 11 0.00
774 10 0.00
775 6 0.00
777 14 0.00
778 117 0.04
779 3 0.00
781 6 0.00
782 59 0.02
783 19 0.01
784 7 0.00
786 1 0.00
787 2 0.00
788 2 0.00
789 1 0.00
791 2 0.00
792 2 0.00
793 3 0.00
794 6 0.00
796 3 0.00
797 117 0.04
798 16 0.00
799 11 0.00
800 11 0.00
801 9 0.00
802 20 0.01
803 84 0.03
804 9 0.00
805 2 0.00
811 66 0.02
812 65 0.02
813 168 0.05
814 255 0.08
815 20 0.01
816 144 0.04
817 239 0.07
818 30 0.01
820 5 0.00
821 7 0.00
822 174 0.05
823 561 0.18
824 412 0.13
825 117 0.04
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (815 bp):
GTTTGTTTGTAATTCATTAAAGTCAGTAGTCAATAAAAAAATACATTAGTTCCTTTTCTTTTCAT
CTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTACTCTTGAAAAGTATCTTGAGAGAGGAGG
CGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAATAA
TAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACGCCG
TTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAGGAAAGCGGGAAAGAACAAAAGAG
ATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTGTT
GTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATCCATA
TAAGAGGGAATCCTAGTTGATGTAAGATGATCTTTTTTAACACTCCAAAATTTGGTTTAGAATTT
TTCTGACATATGATGATCAGAAAATAATTTTGAAGGATTAAATTATGAAAATGAATCTCCTAAAA
AGAAACTAGTTTGAAAAGAATATGTTCTGATTCGAAATTTGAATAAGGATTAAAATATGCAAATA
AAAATGTTTGAAAGCTAAATAAGAAAGATGAAAGTTGGAGTGCTAGAGATGTGGCATATGAGATT
TGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAATTATTTATG
TTTTAGGTTTTATATTTGGGCTATAAAATACCCAA
Found at i:21120 original size:824 final size:809
Alignment explanation
Indices: 19192--21410 Score: 2959
Period size: 824 Copynumber: 2.7 Consensus size: 809
19182 AATTGTTTAT
*
19192 GTTTGTTTGTAATTCATTAAAGTCAGTAATTCAATAAAAAAAATACATTA-TTCCTTTT-TGTTT
1 GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAAT-AAAAAAATACATTAGTTCCTTTTCT-TTT
*
19255 CATCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTACATCTTGAAAAGTATCTAGAGAGAG
64 CATCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTAC-TCTTGAAAAGTATCTTGAGAGAG
* * * *
19320 GAGGCGTTGAACGGCGTCGTCAGGATCCGTATTACCA-TTTTTAATGAATCATAAAGAGATTTTT
128 GAGGCGTTGAACGGCGTCGCCAGGATCCATATTA-CAGTTTTTAATGAATCTTAAAGAGATTGTT
* * * * * *
19384 AATAATAGTTGGACGAAGTGAGAGACCTTCGTCGTCCTTAGAGACTGTAATATGGACCGTAATGG
192 AATAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGA
* * * * * *
19449 CGCCGCTCAAAGCCTACTCTATCAAGATACTTTTCATCAGGTAAAATGCAAACGTGAAAGAACAA
257 CGCCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAAGC-AAGGGGAAAGAACAA
* *
19514 AAGAGATGAAAGACGCCGTTCAACGCCTCCTCTATCAAGATGCTAACAAAATTGTATATGTTTTT
321 AAGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATG-TTTT
*
19579 CTTGTAGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATA
385 CTTGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATA
* *
19644 TCCATATAAGAGGGAATCCTAGTTGATATAAGATGATCTTTTTTTAACACTCCAAAATTTGGTTT
450 TCCATATAAGAGGTAATCCTAGTTGATGTAAGATGATC-TTTTTTAACACTCCAAAATTT-GTTT
* * * * * *
19709 AGAAATTTTCTGATGTCTGATGATTAGAAAATAATTTCTGAAGGAAT-AATTATGAAAATGAGTC
513 AGAATTTTTCTGA-ATATGATGATCAGAAAATAATTT-TGAAGGATTAAATTATGAAAATGAATC
** * * * *
19773 TTGTAAAAGAAACTAGTTTGAATCAAATATGCTCTGATTAGAAATTTGAATAAGAATTAAAATAT
576 TCCTAAAAGAAACTAATTTGAATAAAATATGCTCTGATTAGAAATTGGAAAAAGAATTAAAATAT
* ** *
19838 TCTTAAAATTTTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATGCTAGAGATATGACATATGAG
641 GCAAAAAATTTTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATACTAGAGATATGACATATGAG
*
19903 ATTTGATGTACATCGTTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAAATATTT
706 ATTTGATGTACATCATTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAAATATTT
19968 ACGTTTTAGATTATTATATTTGGGCTATAAAATACCCAA
771 ACGTTTTAGATTATTATATTTGGGCTATAAAATACCCAA
* * *
20007 GTTTGTTTGTAATTCATTAAGGTCATTAAG-T-AA-AAAAAAATACATTAGTTCCTTTACTTTTC
1 GTTTGTTTGTAATTCATTAAAGTCAGT-AGTTCAATAAAAAAATACATTAGTTCCTTTTCTTTTC
* * *
20069 ATCTCTTTTCTTCTTTTAGTCTTTCCCGTTTTTCTTTTTACCTCTTGAAAAGTACCTTGAGAGAG
65 ATCTCTTTTCTTCTTTGAGTCTTTCCCG-TTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAG
* * * * * * * *
20134 GAGGCGTTGAATGACGTTGCTAGGTTCCATATTTCAGTCTTTAATTAATCTTAAAGAGATTGTTA
128 GAGGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTA
* * * * * ** * *
20199 ATAATAGTTGTATGGACCGAGAGATCTTCACTATCCTTGGAGGCTGTAATATGGACCGTAACGAC
193 ATAATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGAC
* * * * * * *
20264 GCTGTTCAGCACCTCCTCTATCAAGGTACTTTTCATAAGGTAAAAAGCGAGGGAGAAAGAAGAAA
258 GCCGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAAGCAAGGG-GAAAGAACAAA
* * *
20329 AGAGATGAAAGATGCCGTTCAATGACTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTGT
322 AGAGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCT
20394 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
387 TGTTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATC
* * *
20459 CATATAAGAGGTAATACTAGTTGATGTAAGATGATC-TTTTTAATACTCCGAAATTTAGTTTAGA
452 CATATAAGAGGTAATCCTAGTTGATGTAAGATGATCTTTTTTAACACTCCAAAATTT-GTTTAGA
*
20523 ATTTTTCTGACATATGATGATCAGAAAATTAATTTTCAAGGATTAAATTATG-AAATGAATCTCC
516 ATTTTTCTGA-ATATGATGATCAGAAAA-TAATTTTGAAGGATTAAATTATGAAAATGAATCTCC
* * * *
20587 TAAAATGAAACTAATTTGAA-AAGAATATGTTCTGGTTCGAAATTGGAAAAAGGATTAAAATATG
579 TAAAA-GAAACTAATTTGAATAA-AATATGCTCTGATTAGAAATTGGAAAAAGAATTAAAATATG
* * * * *
20651 CAAAAAAAAAAAAAAATTGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTACTAGAGATGT
642 C---------AAAAAA-T-TTTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATACTAGAGATAT
* *
20716 GGCATATGAGATTTGATGTACATCATTTATGTTTTAATCAATCACATTCAAGTTAAAAAATATCT
696 GACATATGAGATTTGATGTACATCATTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCT
* * **
20781 CTAATTATTTATGTTTT-GGGTATTTATATTTGGGCTATAAAATACCCAA
761 CTAAATATTTACGTTTTAGATTA-TTATATTTGGGCTATAAAATACCCAA
*
20830 GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAATAAAACAATACATTAGTTCCTTTTCTTTTCA
1 GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
* * *
20895 TCTCTTTTCTTCTTTGAGTCTTTCCTGTTTGATTTTTAGCTCTTGAAAACTATCTTGAGAGAGGA
66 TCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTA-CTCTTGAAAAGTATCTTGAGAGAGGA
* * *
20960 GGCATTGAACGGCGTCGCCAGGGTCCATATTACAGTTTTTAATGAATTTTAAAGAGATTGTTAAT
130 GGCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAAT
* **
21025 AATAGTTGCACGAACTGAGAGATCTTTGCCGTCCTTAGAGACTGTAATATGGATTGTAACGACGC
195 AATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACGC
* * * * * * *
21090 CGTTCAACGCCTTCTATATTAAGATACTTTTCATGAGGTAAAAGGAAAGCGGGAAAGAATAAAAG
260 CGTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAAGCAAG-GGGAAAGAACAAAAG
* * * *
21155 AAATAAAAGACGCCGTTCAATGCCTCCTCTATCAAGATATTAACAAATTTGTATATGTTTTCTTG
324 AGATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTG
21220 TTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTC-TTTATATCCA
389 TTGTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATCCA
* * * *
21284 TATAAGAGATAATCCTGGTTGATGTAAGATGATCTTTTATTAACACTCCAAAATTTGATTAGATT
454 TATAAGAGGTAATCCTAGTTGATGTAAGATGATCTTTT-TTAACACTCCAAAATTTGTTTAGAAT
* *
21349 TTTTCTGAAGTTTGATGATCATAAAATAATTTTTGAAGGATTAAATTATGAAAATGAATCTC
518 TTTTCTGAA-TATGATGATCAGAAAATAA-TTTTGAAGGATTAAATTATGAAAATGAATCTC
21411 GTTTTCTTTT
Statistics
Matches: 1217, Mismatches: 155, Indels: 54
0.85 0.11 0.04
Matches are distributed among these distances:
811 70 0.06
812 75 0.06
813 144 0.12
814 239 0.20
815 27 0.02
816 1 0.00
821 4 0.00
822 6 0.00
823 214 0.18
824 356 0.29
825 81 0.07
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (809 bp):
GTTTGTTTGTAATTCATTAAAGTCAGTAGTTCAATAAAAAAATACATTAGTTCCTTTTCTTTTCA
TCTCTTTTCTTCTTTGAGTCTTTCCCGTTTGCTTTTTACTCTTGAAAAGTATCTTGAGAGAGGAG
GCGTTGAACGGCGTCGCCAGGATCCATATTACAGTTTTTAATGAATCTTAAAGAGATTGTTAATA
ATAGTTGCACGAACTGAGAGATCTTCGCCGTCCTTAGAGACTGTAATATGGACCGTAACGACGCC
GTTCAACGCCTACTCTATCAAGATACTTTTCATAAGGTAAAAAGCAAGGGGAAAGAACAAAAGAG
ATGAAAGACGCCGTTCAATGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTGTT
GTTACTTGAGTTTCTACAATGTTCATATCAATTAGGTTGTTTTTGTCTTTTCTTTTATATCCATA
TAAGAGGTAATCCTAGTTGATGTAAGATGATCTTTTTTAACACTCCAAAATTTGTTTAGAATTTT
TCTGAATATGATGATCAGAAAATAATTTTGAAGGATTAAATTATGAAAATGAATCTCCTAAAAGA
AACTAATTTGAATAAAATATGCTCTGATTAGAAATTGGAAAAAGAATTAAAATATGCAAAAAATT
TTGAAAGCTAAATAAGAAAAATGAAAGTTGAAATACTAGAGATATGACATATGAGATTTGATGTA
CATCATTTATGTTTTAATCAATCACATTAAAGTTAAAAAATATCTCTAAATATTTACGTTTTAGA
TTATTATATTTGGGCTATAAAATACCCAA
Found at i:25420 original size:810 final size:810
Alignment explanation
Indices: 23074--25520 Score: 3388
Period size: 818 Copynumber: 3.0 Consensus size: 810
23064 ACTAACACAA
* * *
23074 ATATCCATATAAGATAGAATCCTAGTTGATGTAAGATGATCTTTTTTTTAACACTCAGAAATTTT
1 ATATCCATATAAGATGGAATCCTAGTTGATGTAAGATGA-CCTTTTTTTAACACTCAGAAATTTG
*
23139 GTTTAGAATTTTTGTGACGTATGATGATCATAAAATAAAATTTTGAAGGATTAAATTATGAAAAT
65 GTTTAGAATTTTTGTGACGTATGATGATCA-AAAAT-AATTTTTGAAGGATTAAATTATGAAAAT
* * * *
23204 GAATTTTGTAAAAAGAAACTTGTTTGAATCGAATATGTTCTGATTTGAAATTTGAATAAAGATTA
128 GAATATCGTAAAAAGAAACTAGTTTGAATCGAATATGTTCTGATTTGAAATTTGAATAAGGATTA
* * * **
23269 AAATAGGCTAAAAAGGTTTGAAAGCTATATTAGAAAGATGAAAGTTGGAGTCCTCGAGATGTGGC
193 AAATTGGCTAAAAA-GTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTGCAAGAGATGT-GC
* *
23334 C-TATGGGATTTGATGTACATCATTTATGTTTTAATCAATTACATTAAAGTTAAAAAAATATTTC
256 CATATGGGATTTGATGTACATCATTTATGTTTTAATCAATCACATT-AAGTT-AAAAAATATCTC
23398 TAATTATTTATGTTTTGGGTAATTATATTTGGGCTATAAAATACCCAAGTTTGCTTGTAATTCAT
319 TAATTATTTATGTTTTGGGTAATTATATTTGGGCTATAAAATACCCAAGTTTGCTTGTAATTCAT
* *
23463 TAAAGGTAAGTTGTTCAATAAAAAAAATACATTAGTTCCTTTTGTTTTCATTTCTTTTCTTCCTT
384 TAAAGGTAAGTTGTTCAATAAAAAAAATACATTAGTTCCTTTTCTTTTCATTTCTTTTCTTCTTT
* *
23528 GAGTCTTTCTTGTTTGTTTTTTACCTCTTTAAAAGTATCTTGGGAGAGGAAGCATAGAAAGGTGT
449 GAG---TTC---TTT-TTTTTTACCTCTTGAAAAGTATCTTGGGAGAGGAAGCGTAGAAAGGTGT
23593 CGCTAGGGTCCATATTACAGTCTTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGAC
507 CGCTAGGGTCCATATTACAGTCTTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGAC
* * *
23658 TGAGAGATCTTCACCGTCCTTAGAGACTGTAATATTGACCGTAACGACACCGTTCAATGCCTCCT
572 TGAGAGATCTTCACCGTCCTTAGAGACTGTAATATGGACCGTAACAACGCCGTTCAATGCCTCCT
* * *
23723 CTATCAAGATACTTTT-ATTGAGGTTAAAAGCAACGGGGAAATAAGAAAAGAGGTGAAAGACGTC
637 CTATCAAGATACTTTTCA-TGAGGTAAAAAGCAGCCGGGAAATAAGAAAAGAGGTGAAAGACGTC
*
23787 GTTCAACGCCTCCTCTATCAAGATACTAGCAAAATTGTATATGTTTTCTTGTTGTTACTTGAGTT
701 GTTCAACGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTGTTGTTACTTGAGTT
*
23852 TGTACAATGTTCATATCAATTAGGTTGTTTTTGTCCCTTT-TGTT
766 TGTACAATGTTCATATCAATTAGGTTGTTTTTGTCCTTTTCTGTT
* * * **
23896 ATATCCATATAAGAGGGAATCCTAGTTGATGTAAGATGATC-TTTTTTAAGACTTTGAAATTTGG
1 ATATCCATATAAGATGGAATCCTAGTTGATGTAAGATGACCTTTTTTTAACACTCAGAAATTTGG
* * * *
23960 TTTAGAATTTTTCTTATGTATGATGATCAAAAAATAATTTTTGAAGGATTAAATTATGCAAATGA
66 TTTAGAATTTTTGTGACGTATGATGATC-AAAAATAATTTTTGAAGGATTAAATTATGAAAATGA
* * * * * * *
24025 ATCTCTTAAAAGGAATCTAGTTTGAATCCAATATGTTAT--TGTTCAATATTTGAATAAGGATTA
130 ATATCGTAAAAAGAAACTAGTTTGAATCGAATATGTTCTGAT-TTGAA-ATTTGAATAAGGATTA
* *
24088 AAATAT-GCTAAAAAAAGTTTGTAAGCTAAACTAGAAAGATGAAAGTTGGAGTG-ATAGAGATGT
193 AAAT-TGGCT--AAAAAGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTGCA-AGAGATGT
* *
24151 GGCATATGGGATTTGATGTACATCCTTTAT-TTTTAATCAATCACATTAATGTTAAAAAATATCT
254 GCCATATGGGATTTGATGTACATCATTTATGTTTTAATCAATCACATTAA-GTTAAAAAATATCT
* * ** * *
24215 CTAATTATTTATGTTTTGGGTAATTGTATCTAAGCTATAAAATACACAAGTTTGTTTGTAATTCA
318 CTAATTATTTATGTTTTGGGTAATTATATTTGGGCTATAAAATACCCAAGTTTGCTTGTAATTCA
*
24280 TTAAAGGTAAGTTATTCAATAAAAAAAATACATTAGTTCCTTTTCTTTTCATTTCTTTTCTTCTT
383 TTAAAGGTAAGTTGTTCAATAAAAAAAATACATTAGTTCCTTTTCTTTTCATTTCTTTTCTTCTT
24345 TGAGTCTTTCTTGTTTGCTTTTTACCTCTTGAAAAGTATCTTGGGAGAGGAAGCGTAGAAAGGTG
448 TGAG---TTC-T-TTT--TTTTTACCTCTTGAAAAGTATCTTGGGAGAGGAAGCGTAGAAAGGTG
24410 TCGCTAGGGTCCATATTACAGTCTTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGA
506 TCGCTAGGGTCCATATTACAGTCTTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGA
* *
24475 CTGAGAGATCTTC-CTCGTCCTTAGAGACTGTAATATGGACCGTAGCGAA-GCCATTCAATGCCT
571 CTGAGAGATCTTCAC-CGTCCTTAGAGACTGTAATATGGACCGTAAC-AACGCCGTTCAATGCCT
* * * * *
24538 CTTCTATCAAGAAACTTTTCATGTGGTAAAAACCAAG-CGGG-AATGAAGAAAAGAGGTGAAATA
634 CCTCTATCAAGATACTTTTCATGAGGTAAAAAGC-AGCCGGGAAAT-AAGAAAAGAGGTGAAAGA
* * *
24601 CGCCGTTCAATGCCTCCTCTATCAAGATACTAACACAATTGTATATGTTTTCTTGTTGTTACTTG
697 CGTCGTTCAACGCCTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCTTGTTGTTACTTG
*
24666 AGTTTGTACAATGTTCATATCAATTAGGTTGTTTTT-TCCTTTTCTTTT
762 AGTTTGTACAATGTTCATATCAATTAGGTTGTTTTTGTCCTTTTCTGTT
*
24714 ATATCCATATAAGATGGAATCATAGTTGATGTAAGATGACCTTTTTTTAACACTCAGAAATTTGG
1 ATATCCATATAAGATGGAATCCTAGTTGATGTAAGATGACCTTTTTTTAACACTCAGAAATTTGG
*
24779 TTTAGAATTTTTGTGACGTATGACGATCAAAAATTAATTTTTTGAAGGATTAAATTATGAAAATG
66 TTTAGAATTTTTGTGACGTATGATGATCAAAAA-TAA-TTTTTGAAGGATTAAATTATGAAAATG
* *
24844 AATATCGTAAAAAAAAACTAGTTTTAATCGAATATGTTCTGATTTGAAATTTGAATAAGGATTAA
129 AATATCGTAAAAAGAAACTAGTTTGAATCGAATATGTTCTGATTTGAAATTTGAATAAGGATTAA
* * * *
24909 AATTGGCTAAGAGAAGTTAGAAAGGTAAATTAGAAAGATAAAAGTGGGAGTGCAAGAGATGTGCC
194 AATTGGCTAA-A-AAGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTGCAAGAGATGTGCC
* * *
24974 ATATGAGATTTGATGTATATCGTTTATGTTTTAATCAATCACATTCAAGTTAAAAAATATCTCTA
257 ATATGGGATTTGATGTACATCATTTATGTTTTAATCAATCACATT-AAGTTAAAAAATATCTCTA
* * * *
25039 GTTATTTATGTTTTGGGTAATTATATTTGGGATATAAAATACCCAAGTTTGCTTCTAATTTATTA
321 ATTATTTATGTTTTGGGTAATTATATTTGGGCTATAAAATACCCAAGTTTGCTTGTAATTCATTA
* * * * * *
25104 AA-GTAATTTGTTCAAT-AAAAAAGTACTTTAGTTCCTTTTCTTTTCATCTATTTTATTCTTTGA
386 AAGGTAAGTTGTTCAATAAAAAAAATACATTAGTTCCTTTTCTTTTCATTTCTTTTCTTCTTTGA
* * * * * * * *
25167 G-TC-TTTTTTTTACCTCTTGAAAAGTATCTTGAGTGAGGAGGCGTTGAACGGCGTCTCTAAGGT
451 GTTCTTTTTTTTTACCTCTTGAAAAGTATCTTGGGAGAGGAAGCGTAGAAAGGTGTCGCTAGGGT
* * * * *
25230 CCATATTACAGTCTTTAG-TGAATCTTGAAGAGATTTTTAATAATAGCTGCATGGACTGAGAGAT
516 CCATATTACAGTC-TTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGACTGAGAGAT
* ** * *
25294 CTTCACCATCCTTAGAGACTGTAATATGGGTCGTAACAACGCCGTTCAATACCTCCTCTTTCAAG
580 CTTCACCGTCCTTAGAGACTGTAATATGGACCGTAACAACGCCGTTCAATGCCTCCTCTATCAAG
*
25359 ATACTTTTCATGAGGTAAAAAGCAGCCGGGAAATAAGAAAAGAGATGAAAGACGTCGTTCAACGC
645 ATACTTTTCATGAGGTAAAAAGCAGCCGGGAAATAAGAAAAGAGGTGAAAGACGTCGTTCAACGC
* * *
25424 CTACTCTATCAAGATACTAACAAAATTGTATATGTTTT-TATATTGTTACTTGAGTTTCTACAAT
710 CTCCTCTATCAAGATACTAACAAAATTGTATATGTTTTCT-TGTTGTTACTTGAGTTTGTACAAT
* *
25488 TTTCATCTCAATTAGGTTGTTTTTGT-CTTTTCT
774 GTTCATATCAATTAGGTTGTTTTTGTCCTTTTCT
25521 ACAATGTTCA
Statistics
Matches: 1443, Mismatches: 146, Indels: 84
0.86 0.09 0.05
Matches are distributed among these distances:
809 5 0.00
810 293 0.20
811 9 0.01
812 3 0.00
815 2 0.00
816 2 0.00
817 13 0.01
818 503 0.35
819 197 0.14
820 274 0.19
821 102 0.07
822 40 0.03
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (810 bp):
ATATCCATATAAGATGGAATCCTAGTTGATGTAAGATGACCTTTTTTTAACACTCAGAAATTTGG
TTTAGAATTTTTGTGACGTATGATGATCAAAAATAATTTTTGAAGGATTAAATTATGAAAATGAA
TATCGTAAAAAGAAACTAGTTTGAATCGAATATGTTCTGATTTGAAATTTGAATAAGGATTAAAA
TTGGCTAAAAAGTTTGAAAGCTAAATTAGAAAGATGAAAGTTGGAGTGCAAGAGATGTGCCATAT
GGGATTTGATGTACATCATTTATGTTTTAATCAATCACATTAAGTTAAAAAATATCTCTAATTAT
TTATGTTTTGGGTAATTATATTTGGGCTATAAAATACCCAAGTTTGCTTGTAATTCATTAAAGGT
AAGTTGTTCAATAAAAAAAATACATTAGTTCCTTTTCTTTTCATTTCTTTTCTTCTTTGAGTTCT
TTTTTTTTACCTCTTGAAAAGTATCTTGGGAGAGGAAGCGTAGAAAGGTGTCGCTAGGGTCCATA
TTACAGTCTTAGATGAACCTTAAAGAGATTGTTAATAATAGTTGCACGGACTGAGAGATCTTCAC
CGTCCTTAGAGACTGTAATATGGACCGTAACAACGCCGTTCAATGCCTCCTCTATCAAGATACTT
TTCATGAGGTAAAAAGCAGCCGGGAAATAAGAAAAGAGGTGAAAGACGTCGTTCAACGCCTCCTC
TATCAAGATACTAACAAAATTGTATATGTTTTCTTGTTGTTACTTGAGTTTGTACAATGTTCATA
TCAATTAGGTTGTTTTTGTCCTTTTCTGTT
Found at i:28548 original size:131 final size:131
Alignment explanation
Indices: 28323--28574 Score: 344
Period size: 131 Copynumber: 1.9 Consensus size: 131
28313 GGAAAAAGGA
* * * * * *
28323 AATATTTAATTATCTTCTATCGAGAAGAAACAACCTCTCATTCCTTAAAGCAGTCATTTCTTACT
1 AATATCTAATTATCTTCAATCGAGAAGAAACAACCTCTCATGCCCTAAAGCAATCATTTATTACT
*
28388 CCAATCAAAATAAAGAAATATTACTATTTCCTTCTAAAATTAAATATTAATCCGAGAGAAAACGA
66 CCAATCAAAATAAAGAAATATTACTATTTCCTCCTAAAATTAAATATTAATCCGAGAGAAAACGA
28453 T
131 T
* ** *
28454 AATATCTAATTAT-TTCCAATCGAGAATAAATGACCTCTCATGCCCTAAAGCAATCTTTTATTAC
1 AATATCTAATTATCTT-CAATCGAGAAGAAACAACCTCTCATGCCCTAAAGCAATCATTTATTAC
* * ** *
28518 TCCAATCGAAATGAAGTGATATTACTATTTCGTCCTAAAATTAAATATTAATCCGAG
65 TCCAATCAAAATAAAGAAATATTACTATTTCCTCCTAAAATTAAATATTAATCCGAG
28575 TGTAATTTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 2 0.02
131 102 0.98
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (131 bp):
AATATCTAATTATCTTCAATCGAGAAGAAACAACCTCTCATGCCCTAAAGCAATCATTTATTACT
CCAATCAAAATAAAGAAATATTACTATTTCCTCCTAAAATTAAATATTAATCCGAGAGAAAACGA
T
Found at i:30525 original size:11 final size:11
Alignment explanation
Indices: 30504--30548 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
30494 GTTTTTATTA
30504 TTTTATGGTTGG
1 TTTT-TGGTTGG
30516 TTTTTGGTTGG
1 TTTTTGGTTGG
30527 --TTT-GTTGG
1 TTTTTGGTTGG
30535 TTTTTGGTTGG
1 TTTTTGGTTGG
30546 TTT
1 TTT
30549 GCTGGTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.17
9 3 0.10
10 3 0.10
11 15 0.50
12 4 0.13
ACGTcount: A:0.02, C:0.00, G:0.33, T:0.64
Consensus pattern (11 bp):
TTTTTGGTTGG
Found at i:30535 original size:19 final size:19
Alignment explanation
Indices: 30511--30556 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
30501 TTATTTTATG
30511 GTTGGTTTTTGGTTGGTTT
1 GTTGGTTTTTGGTTGGTTT
30530 GTTGGTTTTTGGTTGGTTT
1 GTTGGTTTTTGGTTGGTTT
*
30549 GCTGGTTT
1 GTTGGTTT
30557 GATGGGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.00, C:0.02, G:0.37, T:0.61
Consensus pattern (19 bp):
GTTGGTTTTTGGTTGGTTT
Found at i:30802 original size:13 final size:13
Alignment explanation
Indices: 30784--30817 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30774 TTGTAACCTG
*
30784 AAAATAAATTAAT
1 AAAATAAATAAAT
30797 AAAATAAATAAAT
1 AAAATAAATAAAT
30810 AATAATAA
1 AA-AATAA
30818 TACTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:30815 original size:3 final size:3
Alignment explanation
Indices: 30793--30903 Score: 134
Period size: 3 Copynumber: 36.3 Consensus size: 3
30783 GAAAATAAAT
* * * *
30793 TAA TAA -AA TAAA TAAA TAA TAA TAA TAC TAT TAA TAA TGAA TGA TGA
1 TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* *
30840 TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
30888 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
30904 TTTATCCGGA
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.02
3 88 0.88
4 10 0.10
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32777 original size:17 final size:16
Alignment explanation
Indices: 32714--32765 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
32704 CCCCCTTTTA
*
32714 TTTATTTTATTTTCTT
1 TTTATTTTTTTTTCTT
32730 TTTATTTTTTCTTTCTT
1 TTTATTTTTT-TTTCTT
32747 TTTATTTTTTTTTCTT
1 TTTATTTTTTTTTCTT
32763 TTT
1 TTT
32766 TACATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 18 0.53
17 16 0.47
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTATTTTTTTTTCTT
Found at i:37895 original size:18 final size:18
Alignment explanation
Indices: 37872--37913 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
37862 CAAATCTCTT
37872 CTTCTTCTTCTTTAACAG
1 CTTCTTCTTCTTTAACAG
*
37890 CTTCTTCTTCTTTAGCAG
1 CTTCTTCTTCTTTAACAG
37908 CTTCTT
1 CTTCTT
37914 TGTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.12, C:0.29, G:0.07, T:0.52
Consensus pattern (18 bp):
CTTCTTCTTCTTTAACAG
Found at i:39419 original size:14 final size:14
Alignment explanation
Indices: 39400--39428 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39390 TTCTACGATC
39400 AGCCCATGGTTCAA
1 AGCCCATGGTTCAA
39414 AGCCCATGGTTCAA
1 AGCCCATGGTTCAA
39428 A
1 A
39429 TCCTAGGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (14 bp):
AGCCCATGGTTCAA
Found at i:42028 original size:13 final size:13
Alignment explanation
Indices: 42012--42036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42002 TGAGAATAAA
42012 ATAAAAGAAAATG
1 ATAAAAGAAAATG
42025 ATAAAAGAAAAT
1 ATAAAAGAAAAT
42037 TTGTCAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
ATAAAAGAAAATG
Done.