Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005944.1 Hibiscus syriacus cultivar Beakdansim tig00013958_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: 43480
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Found at i:2118 original size:206 final size:209
Alignment explanation
Indices: 1832--2992 Score: 555
Period size: 207 Copynumber: 5.6 Consensus size: 209
1822 AAGATATTCT
* * * * *
1832 TAGGCATTAATGAACATGTGTGGTGCAGCAGCAGCTGCAAATTTGTTTGGATCCTAGAAGCGTGC
1 TAGGCA-TAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTAGAAGCGTGC
** *
1897 ATCAATTAATTGAATCTT-AAAATCTA-GAAAATTTTGAAATAAGTATCAGGTTAAAAGTC-ATT
65 ATCAATTAATTGAATCTTAAAAAGATATG-AAATTTTGAAATAAGTAACAGGTTAAAAGTCGATT
* * *
1959 CCATACCGCTAAATAATC-TTCACCTTATCAATCTTA-GAAAGAGAATACTTTG-TGACAACTAC
129 CCATACCGC-AAATAATCTTTCACCTTATCAACCTTAGGAAAGA-AATACTCTGTTGA-AACAAC
*
2021 AACAAACAAGACATTCTTG
191 AACAAACAAGACATTCTTA
* * * *
2040 TAGGCATGATGAACATTTTTGGTGCAACAACAACTGCAAA-TTGCTTAGATCCTGGAAGCGTGCA
1 TAGGCATAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTAGAAGCGTGC-
* * * * *
2104 AT-AATTAGTTGAATCTTAAAAAGATATGAAATTTTGAAATAATTAACAGGTTTAGATTCGATTC
65 ATCAATTAATTGAATCTTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGATTC
* * * * * *
2168 CATACTGCCAATACTCTTTCACCTTATCAGCCTTAGGGAATAAATACTCTGTTGAAACAACAACA
130 CATACCGCAAATAATCTTTCACCTTATCAACCTTAGGAAAGAAATACTCTGTTGAAACAACAACA
* *
2233 ACCAAGATATTCTTA
195 AACAAGACATTCTTA
* * * * ** * * * * * *
2248 TAGGCATTGATAAAACATGTGTAGTGC--TAGTAACTGTAAACTTGATTGGATCCTAAAAGCGAG
1 TAGGCA-TAAT-GAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTAGAAGCGTG
* * * * * ** * *
2311 AAAT-AATTATTTGAATCTTAAAAAGATAGGAAATTTTGAAATAACTAACTGGTTATGATTCAAT
64 -CATCAATTAATTGAATCTTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGAT
* * * * * * * * * ** **
2375 TCTATACCTCCAAATACTATTT-ATCTTATTAGCCTGAGGGAAAG-AATACTCT-ATGGCACTGC
128 TCCATACC-GCAAATAATCTTTCACCTTATCAACCTTA-GGAAAGAAATACTCTGTTGAAACAAC
*
2437 AAC-ACCAAGACATTCTTA
191 AACAAACAAGACATTCTTA
* * ** * * * * *
2455 TAGGCATTGATGAACATGTATGGTTTAACAACAACTGCTAA-TTGCTT-GTATCTTGGAAGCATT
1 TAGGCA-TAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAG-ATCCTAGAAGCGTG
* * * ** * * *
2518 TAACAACTAACCGAA-CGTCAAAAAGATA-GAAATTTTGAAATAATTAACAGGTTAAGAGTCGA-
64 CATCAATTAATTGAATC-TTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGAT
* * ** * * * **
2580 TCCATACCGTC-AATACA-CTTTCATCTTATCAACCTGATGG-AAG--ATGTTATGTGGCAACTG
128 TCCATACCG-CAAATA-ATCTTTCACCTTATCAACCTTA-GGAAAGAAATACTCTGTTGAAACAA
** * *
2640 CAACAGCCTATACATTC-TA
190 CAACAAACAAGACATTCTTA
** * * ** * * * *
2659 GTAGGCATTGGTGAACATGTGTGGTGTAGCAGTAACTACAAATTTGCTTGGATCCTTGAAAACGT
1 -TAGGCA-TAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTAG-AAGCGT
* * * * * * * * * *
2724 ACA-AAATTAGTTGAATCATAAAAAGATAT-AAAATTTGAAA-AA-TTACAAGTGAATACTCGAT
63 GCATCAATTAATTGAATCTTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGAT
** * * * ** * * **
2785 TTTATACCACCAAATACTCTTTCACCTTAT-TAGTTTGAGGGAAAG-AATACTCTGTGGCAACTG
128 TCCATACC-GCAAATAATCTTTCACCTTATCAACCTT-A-GGAAAGAAATACTCTGTTGAAACAA
*
2848 CAACAACCAAGACATTCTTA
190 CAACAAACAAGACATTCTTA
* * * * * * * **
2868 TAGGCAATGATGAACATGTGTGGTTCAGCAGCAACTACTAA-TT--TTAGGAT-CTTGCAAATGT
1 TAGGC-ATAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTA-GATCCTAG-AAGCGT
* * * *
2929 GCAACCAATTAGTTGAATCTTAAAAAGATA-GAAA-TTTGAAATAAG-AACAGGTTAAGACTCGA
63 GC-ATCAATTAATTGAATCTTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGA
2991 TT
127 TT
2993 ATGTTGTTGA
Statistics
Matches: 739, Mismatches: 170, Indels: 89
0.74 0.17 0.09
Matches are distributed among these distances:
203 4 0.01
204 34 0.05
205 88 0.12
206 142 0.19
207 178 0.24
208 156 0.21
209 112 0.15
210 25 0.03
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (209 bp):
TAGGCATAATGAACATGTGTGGTGCAACAACAACTGCAAATTTGCTTAGATCCTAGAAGCGTGCA
TCAATTAATTGAATCTTAAAAAGATATGAAATTTTGAAATAAGTAACAGGTTAAAAGTCGATTCC
ATACCGCAAATAATCTTTCACCTTATCAACCTTAGGAAAGAAATACTCTGTTGAAACAACAACAA
ACAAGACATTCTTA
Found at i:2956 original size:413 final size:416
Alignment explanation
Indices: 2000--2991 Score: 995
Period size: 413 Copynumber: 2.4 Consensus size: 416
1990 TCTTAGAAAG
* * * * * * * *
2000 AGAATACTTTGTGACAACTACAACAAACAAGACATTCTTGTAGGC-ATGATGAACATTTTTGGTG
1 AGAATACTCTGTGGCAACTGCAACAACCAAGACATTCTTATAGGCAATGATGAACATGTATGGTT
* * ** *
2064 CAACAACAACTGCAAATTGCTTA-GATCCTGGAAGCGTGCAATAATTAGTTGAATCTTAAAAAGA
66 CAACAACAACTGCTAATT-CTTAGGATCTTGGAAATGTGCAACAATTAGTTGAATCTTAAAAAGA
* * * *
2128 TATGAAATTTTGAAATAATTAACAGGTTTAGATTCGATTCCATACTGCCAATACTCTTTCACCTT
130 TA-GAAATTTTGAAATAATTAACAGGTTAAGACTCGA-TCCATACCGCCAATACACTTTCACCTT
* * * * *
2193 ATCAGCCTTAGGGAATAAATACTCTGTTGAAACAACAACAACCAAGATATTCTTATAGGCATTGA
193 ATCAACCTGAGGGAATAAATACTATGTGGAAACAACAACAACCAAGACATTCTTATAGGCATTGA
** *
2258 TAAAACATGTGTAGTGCTAGTAACTGTAAACTTGATTGGATCCTAAAAGCGAGAAATAATTATTT
258 TAAAACATGTGTAGTGCTAGTAACTACAAACTTGATTGGATCCTAAAAGCGAGAAATAATTAGTT
* * ** * * *
2323 GAATCTTAAAAAGATAGGAAATTTTGAAATAACTAACTGGTTATGATTCAATTCTATACCTCCAA
323 GAATCATAAAAAGATAGGAAAATTTGAAATAACTAACAAGTAATGACTCAATTCTATACCACCAA
*
2388 ATACTATTTATCTTATTAGCCTGAGGGAA
388 ATACTATTTACCTTATTAGCCTGAGGGAA
* *
2417 AGAATACTCTATGGC-ACTGCAAC-ACCAAGACATTCTTATAGGCATTGATGAACATGTATGGTT
1 AGAATACTCTGTGGCAACTGCAACAACCAAGACATTCTTATAGGCAATGATGAACATGTATGGTT
* * * * *** *
2480 TAACAACAACTGCTAATTGCTT-GTATCTTGGAAGCAT-T-TAACAACTAACCGAA-CGTCAAAA
66 CAACAACAACTGCTAATT-CTTAGGATCTTGGAA--ATGTGCAACAATTAGTTGAATC-TTAAAA
* * *
2541 AGATAGAAATTTTGAAATAATTAACAGGTTAAGAGTCGATCCATACCGTCAATACACTTTCATCT
127 AGATAGAAATTTTGAAATAATTAACAGGTTAAGACTCGATCCATACCGCCAATACACTTTCACCT
* * ** * ** * * *
2606 TATCAACCTGATGG-A-AGATGTTATGTGGCAACTGCAACAGCCTATACATTC-TAGTAGGCATT
192 TATCAACCTGAGGGAATAAATACTATGTGGAAACAACAACAACCAAGACATTCTTA-TAGGCATT
* * * * * *
2668 GGT-GAACATGTGTGGTG-TAGCAGTAACTACAAATTTGCTTGGATCCTTGAAAA-CGTA-CAA-
256 GATAAAACATGTGTAGTGCT---AGTAACTACAAACTTGATTGGATCC-T-AAAAGCG-AGAAAT
* * * *
2728 AATTAGTTGAATCATAAAAAGATA-TAAAATTTGAAA-AA-TTACAAGTGAAT-ACTCGATTTTA
315 AATTAGTTGAATCATAAAAAGATAGGAAAATTTGAAATAACTAACAAGT-AATGACTCAATTCTA
* **
2789 TACCACCAAATACTCTTTCACCTTATTAGTTTGAGGGAA
379 TACCACCAAATACTATTT-ACCTTATTAGCCTGAGGGAA
*
2828 AGAATACTCTGTGGCAACTGCAACAACCAAGACATTCTTATAGGCAATGATGAACATGTGTGGTT
1 AGAATACTCTGTGGCAACTGCAACAACCAAGACATTCTTATAGGCAATGATGAACATGTATGGTT
* * * *
2893 CAGCAGCAACTACTAATT-TTAGGATCTTGCAAATGTGCAACCAATTAGTTGAATCTTAAAAAGA
66 CAACAACAACTGCTAATTCTTAGGATCTTGGAAATGTGCAA-CAATTAGTTGAATCTTAAAAAGA
*
2957 TAGAAA-TTTGAAATAA-GAACAGGTTAAGACTCGAT
130 TAGAAATTTTGAAATAATTAACAGGTTAAGACTCGAT
2992 TATGTTGTTG
Statistics
Matches: 469, Mismatches: 85, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
410 32 0.07
411 69 0.15
412 73 0.16
413 118 0.25
414 39 0.08
415 56 0.12
416 69 0.15
417 13 0.03
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (416 bp):
AGAATACTCTGTGGCAACTGCAACAACCAAGACATTCTTATAGGCAATGATGAACATGTATGGTT
CAACAACAACTGCTAATTCTTAGGATCTTGGAAATGTGCAACAATTAGTTGAATCTTAAAAAGAT
AGAAATTTTGAAATAATTAACAGGTTAAGACTCGATCCATACCGCCAATACACTTTCACCTTATC
AACCTGAGGGAATAAATACTATGTGGAAACAACAACAACCAAGACATTCTTATAGGCATTGATAA
AACATGTGTAGTGCTAGTAACTACAAACTTGATTGGATCCTAAAAGCGAGAAATAATTAGTTGAA
TCATAAAAAGATAGGAAAATTTGAAATAACTAACAAGTAATGACTCAATTCTATACCACCAAATA
CTATTTACCTTATTAGCCTGAGGGAA
Found at i:4607 original size:54 final size:52
Alignment explanation
Indices: 4526--4821 Score: 224
Period size: 54 Copynumber: 5.8 Consensus size: 52
4516 TAATTATTTC
* * * *
4526 AACTCATTAT-AAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATA
1 AACTCATTATGAA-TTCCGT-GGTTGCACACTTAGTGCCGATAC-GTCGTTCATA
*
4580 AACTCATTATGAATTCCATGAGTTGCACACTTAGTGCCGATACAGTCGTTCAT-
1 AACTCATTATGAATTCCGTG-GTTGCACACTTAGTGCCGATAC-GTCGTTCATA
* * * *
4633 --CTTATTATAAATTTCGTGGTTGCACACTTAGTGCCGATACGACGTTCATA
1 AACTCATTATGAATTCCGTGGTTGCACACTTAGTGCCGATACGTCGTTCATA
* ** ** *
4683 AACTTATTATGAATTATGTGGGTTGCACACTTAGTGTTGATATGGTCGTTCATA
1 AACTCATTATGAATTCCGT-GGTTGCACACTTAGTGCCGATA-CGTCGTTCATA
* * * **
4737 AA--C-TTAT-AATTCCATGGGTGCACACTTAAT-TTGATACG--GTTCATA
1 AACTCATTATGAATTCCGTGGTTGCACACTTAGTGCCGATACGTCGTTCATA
*
4782 AA--CATATATG-ATTTCGTGGGTTGCACACTTAGTGCCGATA
1 AACTCAT-TATGAATTCCGT-GGTTGCACACTTAGTGCCGATA
4822 TGTAGAAATG
Statistics
Matches: 199, Mismatches: 31, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
45 10 0.05
46 1 0.01
47 9 0.05
48 19 0.10
49 25 0.13
50 27 0.14
51 18 0.09
52 14 0.07
53 21 0.11
54 53 0.27
55 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (52 bp):
AACTCATTATGAATTCCGTGGTTGCACACTTAGTGCCGATACGTCGTTCATA
Found at i:4663 original size:50 final size:51
Alignment explanation
Indices: 4601--4718 Score: 161
Period size: 50 Copynumber: 2.3 Consensus size: 51
4591 AATTCCATGA
*
4601 GTTGCACACTTAGTGCCGATACAGTCGTTCAT-CTTATTATAAATT-TCGT-G
1 GTTGCACACTTAGTGCCGATAC-GACGTTCATACTTATTATAAATTAT-GTGG
*
4651 GTTGCACACTTAGTGCCGATACGACGTTCATAAACTTATTATGAATTATGTGG
1 GTTGCACACTTAGTGCCGATACGACGTTCAT--ACTTATTATAAATTATGTGG
4704 GTTGCACACTTAGTG
1 GTTGCACACTTAGTG
4719 TTGATATGGT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
49 8 0.13
50 22 0.36
52 14 0.23
53 17 0.28
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (51 bp):
GTTGCACACTTAGTGCCGATACGACGTTCATACTTATTATAAATTATGTGG
Found at i:4712 original size:103 final size:99
Alignment explanation
Indices: 4531--4821 Score: 275
Period size: 103 Copynumber: 2.9 Consensus size: 99
4521 ATTTCAACTC
* * * *
4531 ATTATAAGTTCCGTGGGGTGCACACGTAGTTCCGATACGGTCATTCATAAACTCATTATGAATTC
1 ATTATAAATTCCGT-GGGTGCACACTTAG-TCCGATAC-G-CGTTCATAAACTTATTATGAATT-
** * **
4596 CATGAGTTGCACACTTAGTGCCGATACAGTCGTTCATCTT
61 TGTGGGTTGCACACTTAGTGCCGATACAGTCGTTCAT-AA
* *
4636 ATTATAAATTTCGTGGTTGCACACTTAGTGCCGATACGACGTTCATAAACTTATTATGAATTATG
1 ATTATAAATTCCGTGGGTGCACACTTAGT-CCGATACG-CGTTCATAAACTTATTATGAATT-TG
** **
4701 TGGGTTGCACACTTAGTGTTGATATGGTCGTTCATAA
63 TGGGTTGCACACTTAGTGCCGATACAGTCGTTCATAA
* * ** *
4738 ACTTAT-AATTCCATGGGTGCACACTTAATTTGATACG-GTTCATAAACATA-TATG-ATTTCGT
1 A-TTATAAATTCCGTGGGTGCACACTTAGTCCGATACGCGTTCATAAACTTATTATGAATTT-GT
4799 GGGTTGCACACTTAGTGCCGATA
64 GGGTTGCACACTTAGTGCCGATA
4822 TGTAGAAATG
Statistics
Matches: 157, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
96 1 0.01
97 26 0.17
98 4 0.03
99 12 0.08
101 6 0.04
102 20 0.13
103 57 0.36
104 19 0.12
105 12 0.08
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (99 bp):
ATTATAAATTCCGTGGGTGCACACTTAGTCCGATACGCGTTCATAAACTTATTATGAATTTGTGG
GTTGCACACTTAGTGCCGATACAGTCGTTCATAA
Found at i:4807 original size:48 final size:49
Alignment explanation
Indices: 4643--4815 Score: 169
Period size: 53 Copynumber: 3.5 Consensus size: 49
4633 CTTATTATAA
**
4643 ATTTCGT-GGTTGCACACTTAGTGCCGATACGACGTTCATAAACTTATTATG
1 ATTTCGTGGGTTGCACACTTAGTGTTGATACG-CGTTCATAAAC-TA-TATG
* *
4694 AATTAT-GTGGGTTGCACACTTAGTGTTGATATGGTCGTTCATAAACT-TATA
1 -ATT-TCGTGGGTTGCACACTTAGTGTTGATA-CG-CGTTCATAAACTATATG
* * *
4745 ATTCCATGGG-TGCACACTTAAT-TTGATACG-GTTCATAAACATATATG
1 ATTTCGTGGGTTGCACACTTAGTGTTGATACGCGTTCATAAAC-TATATG
4792 ATTTCGTGGGTTGCACACTTAGTG
1 ATTTCGTGGGTTGCACACTTAGTG
4816 CCGATATGTA
Statistics
Matches: 100, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
45 10 0.10
46 1 0.01
47 12 0.12
48 17 0.17
49 11 0.11
50 7 0.07
51 3 0.03
52 5 0.05
53 22 0.22
54 12 0.12
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (49 bp):
ATTTCGTGGGTTGCACACTTAGTGTTGATACGCGTTCATAAACTATATG
Found at i:6432 original size:20 final size:19
Alignment explanation
Indices: 6396--6448 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
6386 TCAGCTGAGT
* *
6396 AGTATCGATAACGAAGGGA
1 AGTATCGATACCAAAGGGA
6415 GAGTATCGATACCAAAGGGA
1 -AGTATCGATACCAAAGGGA
*
6435 AGGAATCGATACCA
1 A-GTATCGATACCA
6449 TTCAAAAGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.42, C:0.15, G:0.28, T:0.15
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:10583 original size:20 final size:20
Alignment explanation
Indices: 10558--10608 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
10548 ATTCAATCAA
*
10558 TATCGATACCGAAGGG-AGAG
1 TATCGATACCAAAGGGAAG-G
10578 TATCGATACCAAAGGGAAGG
1 TATCGATACCAAAGGGAAGG
*
10598 TGTCGATACCA
1 TATCGATACCA
10609 TTTAGAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (20 bp):
TATCGATACCAAAGGGAAGG
Found at i:10681 original size:22 final size:20
Alignment explanation
Indices: 10629--10700 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
10619 AATGTAAAAT
10629 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTATG
* *
10648 GGTATCGGTACCGTAGTATG
1 GGTATCGATACCATAGTATG
* *
10668 GTAGTATCGATACCCTGGTATG
1 G--GTATCGATACCATAGTATG
10690 GGTATCGATAC
1 GGTATCGATAC
10701 TGAGGAGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.36
20 12 0.27
22 17 0.38
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTATG
Found at i:11110 original size:56 final size:56
Alignment explanation
Indices: 11038--11576 Score: 839
Period size: 56 Copynumber: 9.7 Consensus size: 56
11028 TAAGTGTGGA
11038 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
11094 AAAACGTAAGAAATTCATACTAAGTGGATGAATTTCCCTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
11150 AAAACATAAGAAATTCATACTAAGTGGATGAATTTCCCTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
11206 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGAACTAAATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
11262 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTTCGTATTGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
11318 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
**
11374 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTTTGTATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
11430 AAAACTTGAGAAATTCATACTAAGTGGATGAATTTCGGTATGGGCACTTTATGT-T
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * * * *
11485 TAAATTTAAGAAATTCATACTAAGTGGGTGAATTTCTGTATGGCCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
11541 AAAAC-TAGGAAATTTATATTAAGTGTATGAATTTCC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCC
11577 ATATTGGTAG
Statistics
Matches: 445, Mismatches: 37, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
55 73 0.16
56 372 0.84
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:13093 original size:4 final size:4
Alignment explanation
Indices: 13072--20343 Score: 9487
Period size: 4 Copynumber: 1812.0 Consensus size: 4
13062 ACAATGTATG
* * * * * * * *
13072 CATA CACA CATG CATA CATA CACA CATG CATG CATA CACA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
13120 CATA CACA CACA CATA CAAA CATA CATA CATA CACA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13168 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13216 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13264 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
13312 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
13360 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * *
13408 CATA CATA CATG CCTG CATA TGCATG CATG CCTG CATAA GCATG CATG
1 CATA CATA CATA CATA CATA --CATA CATA CATA CAT-A -CATA CATA
* * * * * * * * * *
13456 GATG CATG CATG CATA CACA AATG CATA CATA CACA CATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
13504 CACA CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
13552 CATA CATA CATA CATA CATA CATA CATA CATA CATG CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
13600 CATA CATA CATA CATA CACA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
13648 CATA CATG CATA CATA CATG CATA CATA CATG CATG CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
13696 TATG CATA CATGCA CATA CATG CATA CATGCA CATA CATG CATA CATG
1 CATA CATA CAT--A CATA CATA CATA CAT--A CATA CATA CATA CATA
* * * * * * * * * *
13744 CATA CATG CATG CATG CCTG CATA TGCATG CATG CCTG CATAA GCATG
1 CATA CATA CATA CATA CATA CATA --CATA CATA CATA CAT-A -CATA
* * * * * * * * * *
13792 CATG GATG CATG CATG CATA CACA CATG CATA CATA CACA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
13840 CATA CACA CATG CATG CATA CACA CACA CATA CAAA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13888 C--A CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13932 CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
13978 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14024 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14072 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14120 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14168 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
14216 CATA CATA CATA CATA TACTA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CA-TA CATA CATA CATA CATA CATA CATA CATA
14265 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14313 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
14361 CATA CATA CATA TATA CATA CATG CATA CATA CATA CATG CCTG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * * *
14409 TGCATG CATG CCTG CATAA GCATG CATG GATG CATG CATG CATA CACA
1 --CATA CATA CATA CAT-A -CATA CATA CATA CATA CATA CATA CATA
* * *
14457 CATG CATG CATA CACA CAT- -ATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14503 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14549 CATA C--A CATA CATA CATA CATA CATA CAT- -ATA CATA CAT- -ATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
14591 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
14639 CATA CATA CATA CATA CATA CACA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
14687 CATA CATA CATA CCTA CATA CATA CATA CATG CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
14735 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
14783 CATA CATG CATA CATA CATG CATG CATA CATG CATG TATG CATA CATGCA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A
* * * * * * *
14833 CATA TATG CATA CATGCA CATA CATG CATA CATG CATA CATG CATG CATG
1 CATA CATA CATA CAT--A CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * * * *
14883 CCTG CATA TGCATG CATG CCTG CATAA GCATG CATG GATG CATG CATG
1 CATA CATA --CATA CATA CATA CAT-A -CATA CATA CATA CATA CATA
* * * * * * *
14931 CATA CACA CATG CATA CATA C--A CATG CATG CATA CACA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
14977 CATA CACA CACA CATA CATA CATA CATA CATA CACA CACA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
15025 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
15073 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
15121 CATG CATA CATA CATG CATG CATA CATG CATG TATG CATA CATGCA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A CATA
* * * * * * * *
15171 CATG CATA CATGCA CATA CATG CATA CATG CATA CATG CATG CATG CCTG
1 CATA CATA CAT--A CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * *
15221 CATA TGCATG CATG CCTG CATAA GCATG CATG GATG CATG CATG CATA
1 CATA --CATA CATA CATA CAT-A -CATA CATA CATA CATA CATA CATA
* * * * * * * *
15269 CACA CATG CATA CATA CACA CATG CATG CATA CACA CATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
15317 CACA CACA CATA CATA CATA CATA CATA CACA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15365 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15413 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * **
15461 CATA CATA CATA CATG CATA CATG CATA CATA CATG CATG CATA CACG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
15509 CATG TATG CATA CATGCA CATA CATG CATA CATGCA CATA CATG CATA
1 CATA CATA CATA CAT--A CATA CATA CATA CAT--A CATA CATA CATA
* * * * * * *
15557 CATG CATA CATA CATG CATA CATA TATG CATA CATA TATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
15605 CATG CATG TATG CATA CATGCA CATA CATG CATA CATGCA CATA CATG
1 CATA CATA CATA CATA CAT--A CATA CATA CATA CAT--A CATA CATA
* * * * * * * * * *
15653 CATA CATG CATA CATG CATG CATG CCTG CATA TGCATG CATG CCTG CATAA
1 CATA CATA CATA CATA CATA CATA CATA CATA --CATA CATA CATA CAT-A
* * * * * * * * *
15704 GCATG CATG GATG CATG CATG CATA C--A CATG CATA CATA CACA CATG
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
15751 CATG CATA CACA CATG CATG CATA C--A CACA CACA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15797 C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15843 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15891 CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15937 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15984 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16030 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16078 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16126 CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16172 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16220 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16268 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * *
16316 CATA CATA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
16364 CGTA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16412 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
16458 CATA CATA TATA CATA TATA CATA CATA TATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16506 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
16554 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CTTG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * * *
16602 TGCATG CATG CCTG CATAA GCATG CATG GATG CATG CATG CATA CACA
1 --CATA CATA CATA CAT-A -CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
16650 CATG CATA CATA CACA CATG CATG CATA CACA CATG CATG CATA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
16698 CACA CATA CATA CATA CATA CACA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16746 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16794 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16842 CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16888 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16936 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
16984 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17032 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17078 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** *
17126 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** * * * * *
17174 GGTA CGTA CGTA CGTA CGTA CATA CGTA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17222 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17270 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
17318 CATA CAT- -ATA CATA CATA CATA TATA CATA CAT- -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17362 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17408 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
17456 CATA CATA CATA CATG CATA CATG CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
17504 CATG CATA CATA CATA CATA CATG CATA CATA CATG CATA CATA TATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
17552 CATG CATA CATG CATG TATG CATC CATGCA CATA CATG CATA CATGCA
1 CATA CATA CATA CATA CATA CATA CAT--A CATA CATA CATA CAT--A
* * * * * * * * *
17600 CATA CATG CATA CATG CATA CATG CATG CATG CCTG CATA TGCATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA --CATA CATA
* * * * * * * * * *
17650 CCTG CATAA GCATG CATG GATG CATG CATG CATA CACA CATG CATA CATA
1 CATA CAT-A -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
17700 CACA CATG CATG CATA CACA CATG CATA CATA CACA CATG CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
17748 CACA CATG CATG CATA CACA CAAA CATA CATA CATA CATA CACA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17796 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17844 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17892 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17940 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
17988 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** * * * * * * * *
18036 CATA CATA CATA TGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
18084 CATA CATA TATA CATA CATA CATA CATG CATA CATA CATA CAAA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
18132 CATA CATG CATA CATA CATG CATA CATA CATG CATG CATA CATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
18180 TATG CATA CATGCA CATA CATG CATA CATGCA CATA CATG CATA CATG
1 CATA CATA CAT--A CATA CATA CATA CAT--A CATA CATA CATA CATA
18228 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18276 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18324 CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18370 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18418 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18466 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18514 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18562 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18610 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18658 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18706 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
18754 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
18802 CATA CATG CATA CATA CATA CATA CATG CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * *
18850 CATG CATG CATA CATG CATG TATG CATA CATGCA CATA CATG CATA CATGCA
1 CATA CATA CATA CATA CATA CATA CATA CAT--A CATA CATA CATA CAT--A
* * * * * * * * *
18902 CATA CATG CATA CATG CGTA CATG CATA CATG CCTG CATA TGCATG CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA --CATA CATA
* * * * * * ** * * * *
18952 CCTG CATA TGCATG CATG GATG CAGG CATG CATA CACA CATG CATG CATA
1 CATA CATA --CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
19002 CACA CATG CATG CATA CACA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19050 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
19098 CATA CATA CATA TATA CATA CATA CATA CATA CATA -ATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19145 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
19193 CATA CATA CATG CATA CACA CATA CATG CATA CATA CATT TATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
19241 CATA CATA CATA CATA TATG CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
19289 TATA CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19337 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19385 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19433 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19481 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19529 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19577 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19625 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19673 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19721 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19769 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19817 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19865 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* ** * * *
19913 CATA CATA CATG CATA CATA CATA TGTG CATA CATA CATG CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * * * * * * * *
19961 TATG CATG CATGA -ATG TATG CATGA -ATG TATG CATG TATG CATG CATG
1 CATA CATA CAT-A CATA CATA CAT-A CATA CATA CATA CATA CATA CATA
* * * * *
20009 CATA CATGCA CATG CATA CATG CATA CATG CATA CATG CATA CATG CATA
1 CATA CAT--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * *
20059 CATG CATA CATG CATA CATG CATA CATGA CATG CATG CATA CACA CATA
1 CATA CATA CATA CATA CATA CATA CAT-A CATA CATA CATA CATA CATA
* * * * * * * * * *
20108 CATG CATA CACA CATG CATG CATA CACA TATG CATA CATG CACA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
20156 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
20204 CATA CATA CATA CATA TATA CATA TATA CATA CATA CATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * * * * *
20252 CATA CACA CATG CATG CATA CACA CATA CATG CATA CACA CATA TATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
20300 CATA CACA CATA CATG CATA CATG CATA CACA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
20344 TACTTTTGTT
Statistics
Matches: 6567, Mismatches: 577, Indels: 248
0.89 0.08 0.03
Matches are distributed among these distances:
2 46 0.01
3 6 0.00
4 6387 0.97
5 7 0.00
6 121 0.02
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:13439 original size:18 final size:18
Alignment explanation
Indices: 13416--13455 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
13406 TACATACATA
*
13416 CATGCCTGCATATGCATG
1 CATGCCTGCATAAGCATG
13434 CATGCCTGCATAAGCATG
1 CATGCCTGCATAAGCATG
13452 CATG
1 CATG
13456 GATGCATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (18 bp):
CATGCCTGCATAAGCATG
Found at i:23975 original size:211 final size:211
Alignment explanation
Indices: 23341--25767 Score: 2632
Period size: 211 Copynumber: 11.5 Consensus size: 211
23331 ACTCAACACT
* * * * * *
23341 ATACTTCCAAATACTCTTACACCTTATTAGCCTGAGGGAAAGAATACTCTGTGGCAGCTACAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * **
23406 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTTCAACAGCAACTGTTAATTAT-CTTG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATT-TGCTTG
* * * * * * * * *
23470 GATCCTAGAAGCATGTAACTATTAATTGAA-CGTAAAAAAGATAGAAAATTTTGAAATAATAAAT
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAAC
**
23534 AGGTTAAGAGTTTATTCC
194 AGGTTAAGAGTCGATTCC
* ** * * * * * * *** * *
23552 ATACCGAAAAATAGTTTTTCATCTTATCAGCCTGAGGAAAAGAAAACTCCACGGCAACTACAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * *
23617 ACCAAGATATTCTTGTAGGCATTGATAAACATGTGCGGTGCAGCAGCAAATGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * * *
23682 ATCCT-GAAGCGTGCATCAATTAATTGAATCTAAAAAAGATA-GAAACTTTTGAAATAAGTATCA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAA-TTTTGAAATAATTAACA
*
23745 AGTTAAGAGTCGATTCC
195 GGTTAAGAGTCGATTCC
* * * * * * ** *
23762 ATACTGCTAAATACACTTTCACATTATTAACCTTAGAGACCGAATACTCTATGGCAACTGCAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * *
23827 GCCAAGACATTCTTGTAGGCATTAATGAACATGTTTGATGCAACAACAACTACAAAATTT-CTTG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGC-AAATTTGCTTG
* * *
23891 GATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAATAGATAGGAAAATTTGAAATAATTAATA
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
* *
23956 GGTTTAGAGTCGTTTCC
195 GGTTAAGAGTCGATTCC
* * * * *
23973 ATAATGCCAAATACTCTTTTACCTTATCAGCCTTAGGGAATGAATACTCCGTGGCAACAGCAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * *
24038 ACCAAGACATTCTTATAGGCATTGATGAACATGTGTAGTGCAGCAACAACTGCAAATTTTCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * *
24103 ATCCTGGAAGCATGCAACAACTGGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
* ** *
24168 GTTATGTTTCGATTCT
196 GTTAAGAGTCGATTCC
* * * * *
24184 ATACCT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTTTGTGGTAACTACAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * * *
24248 AGCCAAGACATTCTTGTAGGCATTGATGAACATGTGTTGTTCGGCAACAACTACTAATTTGCTTT
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGC-TT
* * * *
24313 GGATCCTGGAAGCATTCAACAATTAATTGAA-CGTAAAAAAGATAGGAAATTTTGAAATAATTAA
129 GGATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAA
* *
24377 CAGGTTAAGAGTTGATTCA
193 CAGGTTAAGAGTCGATTCC
* * * * * * * * *
24396 ATACCGCCAAATATTCCTTCATCTTATCAGCCTTAGGGAACGGATGCTCCGTGGCAACTACAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * * *
24461 ACCAAGAAATTCTTTTAGACATTGATGAACATGTGTGGTACAACAATAATTGCAAATTTGCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
** * * ** *
24526 ATCCTGGAAATGTG-ATACAATTAGTTCAATATTGGAAAGATAGAAAATTTTGAAATAATTAACA
131 ATCCTGGAAGCGTGCA-ACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
* * *
24590 GATTAAGACTCGATTCT
195 GGTTAAGAGTCGATTCC
* * * *
24607 ATACCT-CCAAATACTCTTTCACCTTATTAGCCTGAGGGAAAGAATACTCTTTGGTAACTGCAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * * **
24671 AACCAAGACATTCTTGTAGACAATGATGAACATGTGTGGTTCAGTATCAACTGCTCATTTGCTTG
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTG
* * *
24736 GATCCTGGAAGCATGCAACAATTAATTGAA-CATAAAAAAGATAGGAAATTTTGAAATAATTAAC
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATC-TTAAAAAGATAGGAAATTTTGAAATAATTAAC
*
24800 ATGTTAAGAGTCGATTCC
194 AGGTTAAGAGTCGATTCC
* * * *** * *
24818 ATACCGCCAAATACTCTTTCATCTTATCAGCCTAAGGGAAAGAATACTCCACGACAACTGCAACT
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * *
24883 ACCAAGATATTTTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAAGTGCAAATTTGTTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * ** * * *
24948 ATCCTGGAAGCGTGCATCAATTAATTGAATCTCCAAAAGATAGGAAATTTTAAAATAAGTAACAA
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
*
25013 GTTAAGAGTTGATTCC
196 GTTAAGAGTCGATTCC
** * * * * * ** * *
25029 ATACCACTAAATACTTTTTCACCTTATCAACCTTAGAGAATGAATACTCCATGGAAACTGCAATA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * * * * * *
25094 GCCAAGACATTCTTATAGGCATTGATGAACATATGTGGTGTAACAACAACTGAAAATTTTCTTGG
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * *
25159 ATCCTGGAAGTGTTCAACAATTAGTTGAATCTTAAAAACATAGGAAATTTTGAAATAATTAACAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
25224 GTTTAA-AGTCGATTCC
196 G-TTAAGAGTCGATTCC
* * * * * *
25240 ATACTGCCAAATACTCTTTCAGCTTATAAGCCTTAGGGAATGAATACTCAGTGGCAACAGTAACA
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
* * **
25305 ACCAAAACATTCTTGTAGGCATTGATGAACATGTTTGGTGCAGCAACAACTGCAAATTTGCTTTT
66 ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
* * * *
25370 ATCCTAGAAGTGTGCAATAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAATAG
131 ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
* * *
25435 GTTAAGACTCAATTCT
196 GTTAAGAGTCGATTCC
* * *
25451 ATACCT-CCAAATACTCTTTCACCTTATCAACCTTTGGGAAAGAATACTCTGTGGCACCTGCAAC
1 ATA-CTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAAC
* * * * * *
25515 AGCTAAGATATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGTAGCAACTACAAATTT-CTTG
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTG
* * * * * *
25579 GATCCTGAAAGTGTGCAACAATTAGCTGAATGTCAAAAAGATAGGAAATTTTGAAATAACTAACA
130 GATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACA
*
25644 GGTTAAGAGTCAATTCC
195 GGTTAAGAGTCGATTCC
* * *
25661 ATACTGCCAAATATTCTTTCTCCTTATCAGCCTTAGGGAACGAATACT-TCGTGGCAACTGCAAC
1 ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCT-GTGGCAACTGCAAC
* * * * *
25725 AGCCAAGACATTCTTGTAGACACTAATGAACATGTGAGGTGCA
65 AACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCA
25768 ACAGTAACTG
Statistics
Matches: 1837, Mismatches: 356, Indels: 47
0.82 0.16 0.02
Matches are distributed among these distances:
209 6 0.00
210 330 0.18
211 1314 0.72
212 187 0.10
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (211 bp):
ATACTGCCAAATACTCTTTCACCTTATCAGCCTTAGGGAAAGAATACTCTGTGGCAACTGCAACA
ACCAAGACATTCTTGTAGGCATTGATGAACATGTGTGGTGCAGCAACAACTGCAAATTTGCTTGG
ATCCTGGAAGCGTGCAACAATTAGTTGAATCTTAAAAAGATAGGAAATTTTGAAATAATTAACAG
GTTAAGAGTCGATTCC
Found at i:28887 original size:211 final size:211
Alignment explanation
Indices: 28507--28916 Score: 520
Period size: 211 Copynumber: 1.9 Consensus size: 211
28497 TCGACAAACT
* * * *
28507 GCAAATTTGTTTGGATCCTGGAAGTGTGCAACAATTAATTGAATATAAAAAAGATAGGAACTTTT
1 GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATATAAAAAAGATAGGAAATTTT
* * * ** * *
28572 GAAATGATTAACATGTTAAGAGTATATTCCTTACCGCTAAATACTCTTTCATCGTGTCAACCTCG
66 GAAATAATTAACAGGTTAAGAGTAGATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCG
* * *
28637 GGGAACGAACACTCTGTGGCAATTGCAACAGAAAAGACATTCTTGTAGGCATTGATGAACATGTC
131 GGGAAAGAACACTCTGTGGCAACTACAACAGAAAAGACATTCTTGTAGGCATTGATGAACATGTC
28702 TGGTGCAGCAACAACG
196 TGGTGCAGCAACAACG
* * * * *
28718 GCAAATTTGCTTT-GATATTGGAAGCGTACAACAATTAGTTGAATCTTAAAATGATAGGAAATTT
1 GCAAATTTG-TTTGGATACTGGAAGCGTACAACAATTAATTGAATATAAAAAAGATAGGAAATTT
* * *
28782 TGAAATAATTAACAGGTTAAGAGTCGATTCCATT-CCGAGAAATACTCTTTCACCTTATCAGCCT
65 TGAAATAATTAACAGGTTAAGAGTAGATTCC-TTACCGAGAAATACTCTTTCACCGTATCAACCT
* * ** *
28846 -GAGGGAAAGAATACTTTGTGGCAACTACAACAGCTAAGACATTCTTGTAGGCATTGATTAACAT
129 CG-GGGAAAGAACACTCTGTGGCAACTACAACAGAAAAGACATTCTTGTAGGCATTGATGAACAT
*
28910 GTGTGGT
193 GTCTGGT
28917 ACAGTAGCAA
Statistics
Matches: 168, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
210 1 0.01
211 162 0.96
212 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (211 bp):
GCAAATTTGTTTGGATACTGGAAGCGTACAACAATTAATTGAATATAAAAAAGATAGGAAATTTT
GAAATAATTAACAGGTTAAGAGTAGATTCCTTACCGAGAAATACTCTTTCACCGTATCAACCTCG
GGGAAAGAACACTCTGTGGCAACTACAACAGAAAAGACATTCTTGTAGGCATTGATGAACATGTC
TGGTGCAGCAACAACG
Found at i:31721 original size:42 final size:43
Alignment explanation
Indices: 31645--31825 Score: 163
Period size: 45 Copynumber: 4.1 Consensus size: 43
31635 ATAGAGGTTT
* * *
31645 TAATTTTTTTTAATCCCA-TTTTTAAAATTTATAATAGAGGCACC
1 TAATTTTTTTCAATCCCACTTTTT-AACTTTATAATTGAGGC-CC
* * * *
31689 T-ATTTTTTT-AATCTCACTTTTTATCTTCATAATTGAGACCAC
1 TAATTTTTTTCAATCCCACTTTTTAACTTTATAATTGAGGCC-C
** * *
31731 TAATTTTTTTCAATCTTATTTTTTTACCTTTATAATTGAGGCCC
1 TAATTTTTTTCAATCCCA-CTTTTTAACTTTATAATTGAGGCCC
*
31775 TTAATTTTTTTCAATCCCACTTTTT-ACTTTTATAATTTAGGCCC
1 -TAATTTTTTTCAATCCCACTTTTTAAC-TTTATAATTGAGGCCC
31819 TTAATTT
1 -TAATTT
31826 CATCATTTCT
Statistics
Matches: 114, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.01
42 20 0.18
43 22 0.19
44 35 0.31
45 36 0.32
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.51
Consensus pattern (43 bp):
TAATTTTTTTCAATCCCACTTTTTAACTTTATAATTGAGGCCC
Found at i:31766 original size:45 final size:44
Alignment explanation
Indices: 31690--31825 Score: 150
Period size: 44 Copynumber: 3.1 Consensus size: 44
31680 AGAGGCACCT
*
31690 ATTTTTTT-AATCTCACTTTTTATCTTCATAATTGAGACCAC-TA
1 ATTTTTTTCAATCTCACTTTTTACCTTCATAATTGAGACC-CTTA
* * * *
31733 ATTTTTTTCAATCTTATTTTTTTACCTTTATAATTGAGGCCCTTA
1 ATTTTTTTCAATCTCA-CTTTTTACCTTCATAATTGAGACCCTTA
* * * * *
31778 ATTTTTTTCAATCCCACTTTTTACTTTTATAATTTAGGCCCTTA
1 ATTTTTTTCAATCTCACTTTTTACCTTCATAATTGAGACCCTTA
31822 ATTT
1 ATTT
31826 CATCATTTCT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 8 0.10
44 36 0.45
45 36 0.45
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (44 bp):
ATTTTTTTCAATCTCACTTTTTACCTTCATAATTGAGACCCTTA
Found at i:32640 original size:23 final size:23
Alignment explanation
Indices: 32614--32658 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32604 AATATTTATT
*
32614 TTCATCCATTAATACATAATATG
1 TTCATACATTAATACATAATATG
*
32637 TTCATACATTAATGCATAATAT
1 TTCATACATTAATACATAATAT
32659 CTATAAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (23 bp):
TTCATACATTAATACATAATATG
Found at i:35255 original size:51 final size:51
Alignment explanation
Indices: 35199--35296 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
35189 ACAACATGCC
*
35199 AAAATTCTAAGTTCTCATCACCATTCACAGATTACTATGCTAATATAAACA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
35250 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
1 AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATA
35297 GTTTTTTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (51 bp):
AAAATTCTAAGTTCTCATCACCACTCACAGATTACTATGCTAATATAAACA
Found at i:41540 original size:152 final size:152
Alignment explanation
Indices: 41259--41552 Score: 500
Period size: 152 Copynumber: 1.9 Consensus size: 152
41249 GAAGTTGGCT
* *
41259 ACGTTGCACTCGGTTGCTGAACATGGAGAACATTGTTATTCGGCTGAGTCGCGACCGAGTACGAC
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTACGAC
* *
41324 CATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTTCTTTGGTCTTTCCTCCA
66 CATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTGCATTGGTCTTTCCTCCA
41389 TCATTAACAGTTGGCTTACACA
131 TCATTAACAGTTGGCTTACACA
*
41411 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGATTCGCGACCGAGTTACGA
1 ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAG-TACGA
* * *
41476 CCATCAAATATGACATTACTGTTATTACCAGCTGCCATCAACGGAGC-GCATTGGTCTTTGCTCC
65 CCATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTGCATTGGTCTTTCCTCC
41540 ATCATTAACAGTT
130 ATCATTAACAGTT
41553 TGCTGAACAT
Statistics
Matches: 133, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
152 83 0.62
153 50 0.38
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (152 bp):
ACGTTGCACTCGGTTGCTGAACACGGAGAACATTGTTATTCCGCTGAGTCGCGACCGAGTACGAC
CATCAAATATGAAATTACTGTTATTACCAGCTGCCATCAACGAAGCTGCATTGGTCTTTCCTCCA
TCATTAACAGTTGGCTTACACA
Found at i:41922 original size:29 final size:29
Alignment explanation
Indices: 41889--41969 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
41879 AAAACAACTT
* * * *
41889 GTTTTGGAATTTCCAATAAAGGATAAAGC
1 GTTTTGAAATTTACAATAAAGGACAAAAC
*
41918 GTTTTGAAATTTATAATAAAGGACAAAAC
1 GTTTTGAAATTTACAATAAAGGACAAAAC
*
41947 G--TTG-AATTTACAATTAAGGACAA
1 GTTTTGAAATTTACAATAAAGGACAA
41970 TTTTTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 17 0.38
27 3 0.07
29 25 0.56
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (29 bp):
GTTTTGAAATTTACAATAAAGGACAAAAC
Found at i:42025 original size:24 final size:24
Alignment explanation
Indices: 41978--42025 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
41968 AATTTTTTAA
**
41978 AAATTACAATAAAGTATATTCTTT
1 AAATTACAATAAAGTATAAACTTT
42002 AAATTACAATAAA-TATAAAACTTT
1 AAATTACAATAAAGTAT-AAACTTT
42026 TTTAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATTACAATAAAGTATAAACTTT
Done.