Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002082.1 Hibiscus syriacus cultivar Beakdansim tig00004252_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: 172605
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1295 original size:19 final size:19
Alignment explanation
Indices: 1271--1327 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
1261 AATAGCCTGA
1271 GTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGGCTG
1290 GTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGGCTG
*
1309 GTGCATCGATGCACGGCTG
1 GTGCATCGATGCATGGCTG
1328 ATGCTCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.25
Consensus pattern (19 bp):
GTGCATCGATGCATGGCTG
Found at i:2576 original size:17 final size:18
Alignment explanation
Indices: 2543--2576 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2533 TTGAAGTTTA
2543 GATTTGAGGTTTAGAGTT
1 GATTTGAGGTTTAGAGTT
*
2561 GATTTG-GGTTTGGAGT
1 GATTTGAGGTTTAGAGT
2577 AAAAAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (18 bp):
GATTTGAGGTTTAGAGTT
Found at i:3781 original size:46 final size:47
Alignment explanation
Indices: 3729--3821 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
3719 GAATAAGAAT
* ** *
3729 AAAAATGATTATTTAGTCAAATGTT-AGA-ACTAAAATATTTAAAAAA
1 AAAAATGATTATTTAATCAAACATTGAGATACGAAAA-ATTTAAAAAA
3775 AAAAATGATTATTTAATCAAACATTGAGATACGAAAAATTTAAAAAA
1 AAAAATGATTATTTAATCAAACATTGAGATACGAAAAATTTAAAAAA
3822 TATAAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
46 22 0.54
47 13 0.32
48 6 0.15
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (47 bp):
AAAAATGATTATTTAATCAAACATTGAGATACGAAAAATTTAAAAAA
Found at i:4384 original size:27 final size:27
Alignment explanation
Indices: 4350--4401 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4340 GATATATCAT
4350 GTCATTTAAAATAATGATGTGACATGC
1 GTCATTTAAAATAATGATGTGACATGC
*
4377 GTCATTTAAAATGATGATGTGACAT
1 GTCATTTAAAATAATGATGTGACAT
4402 ATAAAATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCATTTAAAATAATGATGTGACATGC
Found at i:7567 original size:13 final size:11
Alignment explanation
Indices: 7540--7564 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7530 ATGATATATG
7540 TATGAAAAAAA
1 TATGAAAAAAA
7551 TATGAAAAAAA
1 TATGAAAAAAA
7562 TAT
1 TAT
7565 ATGTACATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (11 bp):
TATGAAAAAAA
Found at i:9509 original size:6 final size:6
Alignment explanation
Indices: 9498--9528 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9488 TATCTCGGTT
9498 ATATAA ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA A
9529 ATTTATTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:21446 original size:15 final size:14
Alignment explanation
Indices: 21417--21479 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
21407 ACATATGTCA
* *
21417 TTTCATTTTCTTTT
1 TTTCTTTTTCATTT
21431 TTTCTTCTTTCATTT
1 TTTCTT-TTTCATTT
*
21446 TTCACTTTTTCATTTT
1 TT-TCTTTTTCA-TTT
*
21462 TTTCATTTTTTATTT
1 TTTC-TTTTTCATTT
21477 TTT
1 TTT
21480 AAACTAAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.12
15 21 0.52
16 14 0.35
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCATTT
Found at i:21463 original size:17 final size:16
Alignment explanation
Indices: 21417--21479 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
21407 ACATATGTCA
21417 TTTCA-TTTTC-TTTT
1 TTTCATTTTTCATTTT
21431 TTTC-TTCTTTCA--TT
1 TTTCATT-TTTCATTTT
21445 TTTCACTTTTTCATTTT
1 TTTCA-TTTTTCATTTT
*
21462 TTTCATTTTTTATTTT
1 TTTCATTTTTCATTTT
21478 TT
1 TT
21480 AAACTAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
14 11 0.27
15 9 0.22
16 14 0.34
17 7 0.17
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCATTTTTCATTTT
Found at i:21616 original size:41 final size:42
Alignment explanation
Indices: 21548--21673 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
21538 TAAAACAACC
* * * *
21548 TGCTCGAAGGTCTTACAAATGGCCCGAAGGACTT-ATCATCT
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
* * * *
21589 TGCTTGAAAGACTTACAGATGACCCGAAGTATTTCAATCATCA
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTT-AATCATCA
** *
21632 TGCTCGAAAGACTTATTGATGGCCCAAAGGACTTAATCATCA
1 TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
21674 AGAAACCTTT
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
41 27 0.40
42 8 0.12
43 33 0.49
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
TGCTCGAAAGACTTACAGATGGCCCGAAGGACTTAATCATCA
Found at i:21790 original size:75 final size:75
Alignment explanation
Indices: 21665--21805 Score: 237
Period size: 75 Copynumber: 1.9 Consensus size: 75
21655 CCAAAGGACT
* *
21665 TAATCATCAAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAAATTTCATTTGAAAACATCATA
1 TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
21730 TCGGTCAGGG
66 TCGGTCAGGG
* * *
21740 TAATCGTCAATAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAATATCATA
1 TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
21805 T
66 T
21806 GGTTGGGTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (75 bp):
TAATCATCAAGAAACCATTGAAAATCAAACTTGGCTTCTTTAAAAATTCATTTGAAAACATCATA
TCGGTCAGGG
Found at i:34019 original size:282 final size:281
Alignment explanation
Indices: 33481--36188 Score: 3083
Period size: 282 Copynumber: 9.8 Consensus size: 281
33471 TCTTCAGGCC
* * * *
33481 ATACAAAGACCGAGAATAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGAT
1 ATACACAGA-CGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * * * *
33546 TTGGTTTTTAAGCAACTTCAAGAAGGAGTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* * * * * * *
33611 GAAACTGCTA-GATTATGCAGATAACAAACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAG
130 GAAACCGC-AGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAG
* * * *
33675 GATATACATAAA-AATTTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAG
194 GATATACATAAAGCA-TTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAG
*
33739 GCTTAAAGAACAAATCCTCAAAAG
258 GCTTAAAGAACAAATCATCAAAAG
** * * *
33763 ATATTCAGACGAAGTCTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCGGCAGATGATATTGAT
1 ATACACAGACG-AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * *
33828 ATGGCTTTTAAGCAACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* * *
33893 GAAACCACAGGATCATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGG
130 GAAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
* * ** * *
33958 ATATACATAAAGCATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGC
195 ATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGC
34023 -T---------AT-A-C----G
260 TTAAAGAACAAATCATCAAAAG
* * *
34029 --A-A-GGTCGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATT
1 ATACACAGACGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATT
* * *
34090 TGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAG
66 TGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAG
* * ** * * *
34155 AAACTGCAAGATCATATAGATAGT-AAA-GAAACACTACCTGTTGTCGAGGCAAGATCACTGGAG
131 AAACCGCAGGATCATGGAGATA-TCAAATCAAA-ATTACCTGTTGTCGAGGCAAGATCTCTGGAG
* ** * * * * * *
34218 GATATATATAAAGTTTTTCATGAACCTGCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGG
194 GATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
34283 CTTAAAGAACAAATCATCAAAAG
259 CTTAAAGAACAAATCATCAAAAG
* * * * * *
34306 ACACAAAGACTCAGACGAATGTGGTGCTGCCTGTTCTTGAAGAAAAATCAGCAGAAGACATTGAT
1 ATACACAGAC-GAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * *
34371 ATGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCGAGTATGATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* ** * * *
34436 GAAACTGCAAAATCACT-CAGCTAACAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAG
130 GAAACCGCAGGATCA-TGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAG
* * * * *
34500 GACATACATAATGCATTTCAACAAGCTCCGGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGG
194 GATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
34565 C--------C--AT-A-C-AAAG
259 CTTAAAGAACAAATCATCAAAAG
* *
34575 --AC-C-GA-GA-A-TAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATT
1 ATACACAGACGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATT
* * * * *
34633 TGGTTTTTAAGCAACTTCAAGAAGGAGTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAG
66 TGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAG
* * * * * * *
34698 AAACTGCTA-GATTATGCAGATAACAAACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAGG
131 AAACCGC-AGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
* * * *
34762 ATATACATAAA-AATTTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAGG
195 ATATACATAAAGCA-TTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
*
34826 CTTAAAGAACAAATCCTCAAAAG
259 CTTAAAGAACAAATCATCAAAAG
** * * *
34849 ATATTCAGACGAAGTCTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCGGCAGATGATATTGAT
1 ATACACAGACG-AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * *
34914 ATGGCTTTTAAGCAACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* * *
34979 GAAACCACAGGATCATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGG
130 GAAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
* * ** * *
35044 ATATACATAAAGCATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGC
195 ATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGC
35109 -T---------AT-A-C----G
260 TTAAAGAACAAATCATCAAAAG
* * *
35115 --A-A-GGTCGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATT
1 ATACACAGACGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATT
* * *
35176 TGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAG
66 TGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAG
* * ** * * *
35241 AAACTGCAAGATCATATAGATAGT-AAA-GAAACACTACCTGTTGTCGAGGCAAGATCACTGGAG
131 AAACCGCAGGATCATGGAGATA-TCAAATCAAA-ATTACCTGTTGTCGAGGCAAGATCTCTGGAG
* ** * * * * *
35304 GATATATATAAAGTTTTTCATGAACCTGCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGG
194 GATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
35369 CTTAAAGAACAAATCATCAAAAG
259 CTTAAAGAACAAATCATCAAAAG
* * *
35392 ACACAAAGACCGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
1 ATACACAGA-CGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * *
35457 TTGGCCTTTAAGCAACTTAATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* *
35522 GAAACCGCAGGATCATGGAGATATCAAATCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAAG
130 GAAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
** * * ** *
35587 ATATACATAAAGTTTTTCATCAA-CGTGCAGATTCTAGTAAACCTGAGCTGCCACATTCTTCAGG
195 ATATACATAAAGCATTTCATCAAGC-TCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
35651 CTTAAAGAACAAATCATCAAAAG
259 CTTAAAGAACAAATCATCAAAAG
* * * * * *
35674 ATACAAACACTGAAACCAACG-GGCTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGA
1 ATACACAGAC-GAGACTAATGTGG-TGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGA
* *
35738 TTTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAATATGATTG
64 TTTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTG
* *
35803 AGAAACCACAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAG
129 AGAAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAG
** * * * * *
35868 GATATACATAAAGTTTTTCATCAAACTCCGGAATCTAGTCAACCTGAGATGCCACATTCTTCAGG
194 GATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGG
35933 CTTAAAGAACAAATCATCAAAAG
259 CTTAAAGAACAAATCATCAAAAG
* * *
35956 ATACAAAGACCGAGACCAATGTGGTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGAT
1 ATACACAGA-CGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGAT
* * * * *
36021 TTGGCTTTTAAGCAACTTCATGAAGGGATCGATGTTGAAGAAGTGATTGTTCAAAGTATTATTGA
65 TTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGA
* * * ** ***
36086 GAAACCGAAGGATCATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAAGATCTCTGGAGG
130 GAAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGG
*
36151 ATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGT
195 ATATACATAAAGCATTTCATCAAGCTCCAGAATCTAGT
36189 ATGATTGAGA
Statistics
Matches: 2068, Mismatches: 272, Indels: 172
0.82 0.11 0.07
Matches are distributed among these distances:
260 8 0.00
261 628 0.30
262 12 0.01
263 1 0.00
264 2 0.00
265 2 0.00
266 2 0.00
267 2 0.00
269 5 0.00
270 3 0.00
271 7 0.00
272 8 0.00
273 3 0.00
274 5 0.00
276 1 0.00
277 3 0.00
278 2 0.00
279 3 0.00
280 3 0.00
281 14 0.01
282 1341 0.65
283 13 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (281 bp):
ATACACAGACGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATT
TGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAG
AAACCGCAGGATCATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGA
TATACATAAAGCATTTCATCAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACATTCTTCAGGCT
TAAAGAACAAATCATCAAAAG
Found at i:34252 original size:543 final size:542
Alignment explanation
Indices: 33233--36188 Score: 4031
Period size: 543 Copynumber: 5.4 Consensus size: 542
33223 TGAAGACTCG
** * *
33233 GACTAATGCAGTGTTGCCTGTTCTTGAAGCAAAATCAGCAGAAGACATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* * ** *
33298 AACTTCATGAAGGGGCCGATGTTGAGGAAGTGATTGTTCCGAGTATGATTGAGAAACTGCAAGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * * *
33363 CACT-CAGCTAACAAATCAAAATTACCTGCT-GTCGAGGCAAGATCTCTGGAGGACATACATAAT
131 CA-TGGAGATATCAAATCAAAATTACCTG-TAGTCGAGGCAAGATCTCTGGAGGATATACATAAA
* * *
33426 GCATTTCAACAAGCTCCGGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCCATACAAAGAC
194 GCATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGAT
* * *
33491 CGAGAATAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGTTTTTA
259 CGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTA
* * * * *
33556 AGCAACTTCAAGAAGGAGTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCTA
324 AGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCAA
* * * *
33621 GATTATGCAGATAACAAACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAA
389 GATCATGCAGATAATAAACCAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAA
** ** * **
33686 AAATTTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAGGCTTAAAGAACA
454 AGTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACA
* ***
33751 AATCCTCAAAAGATATTCAGACGAA
519 AATCATCAAAAGATACAAAGACG-A
* * *
33776 GTCTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCGGCAGATGATATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
*
33841 AACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
*
33906 CATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* ** * * *
33971 ATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGCTATACGAAGGTCG
196 ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGATCG
34036 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
261 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
*
34101 CAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAGAAACTGCAAGA
326 CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCAAGA
** * * *
34166 TCATATAGATAGTAAA-GAAACACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATATATAAA
391 TCATGCAGATAATAAACCAAA-ACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAA
* *
34230 GTTTTTCATGAACCTGCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
455 GTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
* *
34295 ATCATCAAAAGACACAAAGACTCA
520 ATCATCAAAAGATACAAAGAC-GA
* * *
34319 GACGAATGTGGTGCTGCCTGTTCTTGAAGAAAAATCAGCAGAAGACATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* ** **
34384 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCGAGTATGATTGAGAAACTGCAAAAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * * * *
34449 CACT-CAGCTAACAAATCAAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGACATACATAATG
131 CA-TGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
* * *
34513 CATTTCAACAAGCTCCGGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCCATACAAAGACC
195 CATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGATC
* * *
34578 GAGAATAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGTTTTTAA
260 GAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAA
* * * * *
34643 GCAACTTCAAGAAGGAGTGGATGTTGAGGAAGTAATTGTTCCTAGTATGATTGAGAAACTGCTAG
325 GCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCAAG
* * * *
34708 ATTATGCAGATAACAAACCAAAACTACCTGTTGTCGAGGCAAGATCTCTGCAGGATATACATAAA
390 ATCATGCAGATAATAAACCAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAA
** ** * **
34773 AATTTTCATCAAGTTCCGGAATCTAGTCCAGTTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
455 GTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
* ***
34838 ATCCTCAAAAGATATTCAGACGAA
520 ATCATCAAAAGATACAAAGACG-A
* * *
34862 GTCTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCGGCAGATGATATTGATATGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
*
34927 AACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
*
34992 CATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* ** * * *
35057 ATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGCTATACGAAGGTCG
196 ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGATCG
35122 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
261 AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
*
35187 CAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAGAAACTGCAAGA
326 CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCAAGA
** * * *
35252 TCATATAGATAGTAAA-GAAACACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATATATAAA
391 TCATGCAGATAATAAACCAAA-ACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAA
* * *
35316 GTTTTTCATGAACCTGCAGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
455 GTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAA
*
35381 ATCATCAAAAGACACAAAGACCGA
520 ATCATCAAAAGATACAAAGA-CGA
* * *
35405 GACAAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* *
35470 AACTTAATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCGCAGGAT
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * * *
35535 CATGGAGATATCAAATCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAAGATATACATAAAGT
131 CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
* * * * ** * *
35600 TTTTCATCAA-CGTGCAGATTCTAGTAAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
196 ATTTCAACAAGC-TCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGC-T---------A
* * * * *
35664 TCATCAAAAGATACAAACACTGAAACCAACG-GGCTGCTGCCTGCTCTTGAAGCAAAATCAGCAG
250 T-A-C-AAAGAT-------C-GAGACTAATGTGG-TGCTGCCTGTTCTTGAAGCAAGATCAGCAG
*
35728 AAGATATTGATTTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCA
303 AAGATATTGATTTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCG
* ** * * * *
35793 AATATGATTGAGAAACCACAGGATCATGGAGAT-ATCAAATCAAAATTACCTGTTGTCGAGGCAA
368 AGTATGATTGAGAAACTGCAAGATCATGCAGATAAT-AAACCAAAACTACCTGTTGTCGAGGCAA
* *
35857 GATCACTGGAGGATATACATAAAGTTTTTCATCAAACTCCGGAATCTAGTCAACCTGAGATGCCA
432 GATCACTGGAGGATATACATAAAGTTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCA
35922 CATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAAGACCGA
497 CATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAAGA-CGA
* * *
35969 GACCAATGTGGTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGC
1 GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
* * * *
36034 AACTTCATGAAGGGATCGATGTTGAAGAAGTGATTGTTCAAAGTATTATTGAGAAACCGA-AGGA
66 AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACC-ACAGGA
* * ** **
36098 TCATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
130 TCATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAG
36163 CATTTCAACAAGCTCCAGAATCTAGT
195 CATTTCAACAAGCTCCAGAATCTAGT
36189 ATGATTGAGA
Statistics
Matches: 2119, Mismatches: 257, Indels: 53
0.87 0.11 0.02
Matches are distributed among these distances:
542 10 0.00
543 1640 0.77
544 7 0.00
553 2 0.00
554 1 0.00
555 1 0.00
556 4 0.00
563 4 0.00
564 446 0.21
565 4 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.26
Consensus pattern (542 bp):
GACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATATGGCTTTTAAGC
AACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
CATGGAGATATCAAATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
ATTTCAACAAGCTCCAGAATCTAGTCCAGCTGAGCTGCCACCTTCTTCAGGCTATACAAAGATCG
AGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAG
CAACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCGAGTATGATTGAGAAACTGCAAGA
TCATGCAGATAATAAACCAAAACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAG
TTTTTCATCAACCTCCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
TCATCAAAAGATACAAAGACGA
Found at i:35105 original size:825 final size:835
Alignment explanation
Indices: 34038--36188 Score: 2689
Period size: 825 Copynumber: 2.6 Consensus size: 835
34028 GAAGGTCGAG
*
34038 ACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAAGATATTGATTTGGCTTTTAAGCA
1 ACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGCA
* * ** *
34103 ACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAGTATGATTGAGAAACTGCAAGATC
66 ACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACCACAGGATC
** * * * *
34168 ATATAGATAGTAAAGA--AACACTACCTGTTGTCGAGGCAAGATCACTGGAGGATATATATAAAG
131 ATGGAGATA-T-CAGATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAG
* * * *
34231 TTTTTCATGAACCTGCGGAATCTAGTCAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAA
194 TTTTTCATCAAACTCCGGAATCTAGTCAACCTGAGCAGCCACATTCTTCAGGCTTAAAGAACAAA
* *
34296 TCATCAAAAGACACAAAGACTC-AGACGAATGTGGTGCTGCCTGTTCTTGAAGAAAAATCAGCAG
259 TCATCAAAAGA-ACAAAGACTCGAGACCAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAG
* *
34360 AAGACATTGATATGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCG
323 AAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCG
* *
34425 AGTATGATTGAGAAACTGCAAAATCACT-CAGCTAACAAATCAAAATTACCTGTTGTCGAGGCAA
388 AGTATGATTGAGAAACTGCAAGATCA-TACAGATAACAAATCAAAATTACCTGTTGTCGAGGCAA
* * * * *
34489 GATCTCTGGAGGACATACATAATGCATTTCAACAAGCTCCGGAATCTAGTCCAGCTGAGCTGCCA
452 GATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGTCAACCTGAGCTGCCA
* *
34554 CCTTCTTCAGGC-C-AT-A-C-AAAGAC-C-GA-GA-A-TAATGTGGTGCTGCCTGTTCTTGAAG
517 CATTCTTCAGGCACAATCATCAAAAGACACAGACGAGACAAATGTGGTGCTGCCTGTTCTTGAAG
* * ** *
34609 CAAGATCAGTAGAAGATATTGATTTGGTTTTTAAGCAACTTCAA-GAAGGAGTGGATGTTGAGGA
582 CAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGCAACTT-AATGAAGGAGTCGATGTTGAGGA
* * *
34673 AGTAATTGTTCCTAGTATGATTGAGAAACTGCTA-GATTATGCAGATAACAAACCAAAACTACCT
646 AGTAATTGTTCCAAGTATGATTGAGAAACCGC-AGGATCATGCAGATAACAAACCAAAACTACCT
* * *
34737 GTTGTCGAGGCAAGATCTCTGCAGGATATACATAAAAATTTTCATCAA-GTTCCGGAATCTAGTC
710 GTTGTCGAGGCAAGATCTCTGCAAGATATACATAAAAATTTTCATCAACG-TCCAGAATCTAGTA
* ** * *** *
34801 CAGTTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCCTCAAAAGATATTCAGAC-GAA
774 AACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAACACTGAA
* * * *
34862 GTCTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCGGCAGATGATATTGATATGGCTTTTAAGC
1 -ACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGC
* * *
34927 AACTTCATGAAGGGGTTGATGTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCACAGGAT
65 AACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACCACAGGAT
* * *
34992 CATGGAGATATCAGATCAAAATTACCTGTAGTCGAGGCAAGATCTCTGGAGGATATACATAAAGC
130 CATGGAGATATCAGATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAGT
* * * * * * * * * *
35057 ATTTCAACAAGCTCCAGAATCTATTCCAGCTGAGCAACCGCCTTCTTCAGGC-T---------AT
195 TTTTCATCAAACTCCGGAATCTAGTCAACCTGAGCAGCCACATTCTTCAGGCTTAAAGAACAAAT
* * *
35112 -A-C----G----AAG-GTCGAGACTAATGTGGTGCTGCCTGTTCTTGAAGCAAGATCAGCAGAA
260 CATCAAAAGAACAAAGACTCGAGACCAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAA
* * *
35166 GATATTGATTTGGCTTTTAAGCAACTTCACGAAGGGGTCGATGTTGAGGAAATAATTGTTCCGAG
325 GATATTGATTTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCGAG
* ** * *
35231 TATGATTGAGAAACTGCAAGATCATATAGATAGTAAA-GAAACACTACCTGTTGTCGAGGCAAGA
390 TATGATTGAGAAACTGCAAGATCATACAGATAACAAATCAAA-ATTACCTGTTGTCGAGGCAAGA
* * ** ** * *
35295 TCACTGGAGGATATATATAAAGTTTTTCATGAACCTGCAGAATCTAGTCAACCTGAGCTGCCACA
454 TCTCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGTCAACCTGAGCTGCCACA
35360 TTCTTCAGGCTTAAAGAACAAATCATCAAAAGACACAAAGACCGAGACAAATGTGGTGCTGCCTG
519 TTCTTCAGGC-------AC-AATCATCAAAAGACAC--AGA-CGAGACAAATGTGGTGCTGCCTG
*
35425 TTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGCAACTTAATGAAGGGGTCGAT
573 TTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCCTTTAAGCAACTTAATGAAGGAGTCGAT
* * * *
35490 GTTGAGGAAGTGATTGTTCCAAGTATGATTGAGAAACCGCAGGATCATGGAGATATCAAATCAAA
638 GTTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACCGCAGGATCATGCAGATAACAAACCAAA
** * ** * *
35555 GTTACCTGTTGTCGAGGCAAGATCTCTGGAAGATATACATAAAGTTTTTCATCAACGTGCAGATT
703 ACTACCTGTTGTCGAGGCAAGATCTCTGCAAGATATACATAAAAATTTTCATCAACGTCCAGAAT
35620 CTAGTAAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAACACT
768 CTAGTAAACCTGAGCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAACACT
35685 GAA
833 GAA
* * *
35688 ACCAACG-GGCTGCTGCCTGCTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGC
1 ACTAATGTGG-TGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGC
*
35752 AACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAATATGATTGAGAAACCACAGGAT
65 AACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACCACAGGAT
*
35817 CATGGAGATATCAAATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAGT
130 CATGGAGATATCAGATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAGT
35882 TTTTCATCAAACTCCGGAATCTAGTCAACCTGAG-ATGCCACATTCTTCAGGCTTAAAGAACAAA
195 TTTTCATCAAACTCCGGAATCTAGTCAACCTGAGCA-GCCACATTCTTCAGGCTTAAAGAACAAA
*
35946 TCATCAAAAGATACAAAGAC-CGAGACCAATGTGGTGCTGCCTGCTCTTGAAGCAAAATCAGCAG
259 TCATCAAAAGA-ACAAAGACTCGAGACCAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAG
* * **
36010 AAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGGATCGATGTTGAAGAAGTGATTGTTCAA
323 AAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCG
* * ** ** * ** ***
36075 AGTATTATTGAGAAACCG-AAGGATCATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAA
388 AGTATGATTGAGAAACTGCAA-GATCATACAGATAACAAATCAAAATTACCTGTTGTCGAGGCAA
36139 GATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGT
452 GATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGT
36189 ATGATTGAGA
Statistics
Matches: 1114, Mismatches: 156, Indels: 91
0.82 0.11 0.07
Matches are distributed among these distances:
803 6 0.01
804 216 0.19
809 1 0.00
812 1 0.00
813 1 0.00
814 3 0.00
815 3 0.00
816 1 0.00
817 6 0.01
818 1 0.00
821 2 0.00
823 5 0.00
824 9 0.01
825 658 0.59
826 5 0.00
835 2 0.00
836 1 0.00
837 1 0.00
841 1 0.00
845 2 0.00
846 188 0.17
847 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (835 bp):
ACTAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAGATATTGATTTGGCTTTTAAGCA
ACTTCACGAAGGGGTCGATGTTGAGGAAGTAATTGTTCCAAGTATGATTGAGAAACCACAGGATC
ATGGAGATATCAGATCAAAATTACCTGTTGTCGAGGCAAGATCACTGGAGGATATACATAAAGTT
TTTCATCAAACTCCGGAATCTAGTCAACCTGAGCAGCCACATTCTTCAGGCTTAAAGAACAAATC
ATCAAAAGAACAAAGACTCGAGACCAATGTGGTGCTGCCTGTTCTTGAAGCAAAATCAGCAGAAG
ATATTGATTTGGCTTTTAAGCAACTTCATGAAGGGGTCGATGTTGAGGAAGTGATTGTTCCGAGT
ATGATTGAGAAACTGCAAGATCATACAGATAACAAATCAAAATTACCTGTTGTCGAGGCAAGATC
TCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCTAGTCAACCTGAGCTGCCACATT
CTTCAGGCACAATCATCAAAAGACACAGACGAGACAAATGTGGTGCTGCCTGTTCTTGAAGCAAA
ATCAGCAGAAGATATTGATTTGGCCTTTAAGCAACTTAATGAAGGAGTCGATGTTGAGGAAGTAA
TTGTTCCAAGTATGATTGAGAAACCGCAGGATCATGCAGATAACAAACCAAAACTACCTGTTGTC
GAGGCAAGATCTCTGCAAGATATACATAAAAATTTTCATCAACGTCCAGAATCTAGTAAACCTGA
GCTGCCACATTCTTCAGGCTTAAAGAACAAATCATCAAAAGATACAAACACTGAA
Found at i:36295 original size:111 final size:111
Alignment explanation
Indices: 36075--36285 Score: 255
Period size: 111 Copynumber: 1.9 Consensus size: 111
36065 GATTGTTCAA
* * * * ** * *
36075 AGTATTATTGAGAAACCGAAGGATCATGGAGATGTCGAATCTGAATTACCTACAGTCGAGGCAAG
1 AGTATGATTGAGAAAACGAAGGATCATGGAGATATCAAATCAAAATTACCTACAGCCGAGGCAAA
* *
36140 ATCTCTGGAGGATATACATAAAGCATTTCAACAAGCTCCAGAATCT
66 ATATCTGGAGGATATACAGAAAGCATTTCAACAAGCTCCAGAATCT
***
36186 AGTATGATTGAGAAAAC-ACAGGATCATGGAGATATCAAATCAAAATTACCTGTTGCCGAGGCAA
1 AGTATGATTGAGAAAACGA-AGGATCATGGAGATATCAAATCAAAATTACCTACAGCCGAGGCAA
* *
36250 AATATCTGGAGGATTTACAGAACGC-TTTGCAACAAG
65 AATATCTGGAGGATATACAGAAAGCATTT-CAACAAG
36286 GCCTAGAATC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
110 4 0.05
111 79 0.95
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (111 bp):
AGTATGATTGAGAAAACGAAGGATCATGGAGATATCAAATCAAAATTACCTACAGCCGAGGCAAA
ATATCTGGAGGATATACAGAAAGCATTTCAACAAGCTCCAGAATCT
Found at i:37478 original size:14 final size:14
Alignment explanation
Indices: 37459--37486 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37449 TTTCAATTTT
37459 GAGTTATTCGAGTC
1 GAGTTATTCGAGTC
37473 GAGTTATTCGAGTC
1 GAGTTATTCGAGTC
37487 AACTCGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (14 bp):
GAGTTATTCGAGTC
Found at i:38030 original size:156 final size:156
Alignment explanation
Indices: 37634--38033 Score: 527
Period size: 157 Copynumber: 2.5 Consensus size: 156
37624 TTCCTCCTTC
37634 ATTTTAAGTCCATTTTTTTAACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATGT
1 ATTTTAAGTCC-TTTTTTT-ACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATGT
* * * *
37699 GTACTTTCAATTCCTCTTTTTGATAACAAATTTTTTATTTTTCAATTTAGTCCTTCAATCTTTCA
64 -AACTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCA
*
37764 TATCTCCTTATTTCTTCAATTCGTCATTT
128 TATCTCCTTATTCCTTCAATTCGTCATTT
* * * *
37793 GTTTTAAGTCCGTTTTTTTACCAAATTTGAGCCACATGCTCCTAAACCATAGTAGAATACATGTG
1 ATTTTAAGTCC-TTTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATGTA
* *
37858 ACTTTCAATTCCTATTTTTTATAA-GAATTTTTTATTTTTAAATTTAGTCCTTCAATTTTTCATA
65 ACTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCAT-
* ** *
37922 ATGTCCTTATTCCTTCAATTTTTGATTT
129 ATCTCCTTATTCCTTCAATTCGTCATTT
* * * *
37950 ATTTTAAGTCC-TTTTTTACCAAATTTGAACCACATGCTCGTATACCACAATATAATATCTATGT
1 ATTTTAAGTCCTTTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATA-C-ATGT
**
38014 AACTTT-AATTGTTATTTTTT
64 AACTTTCAATTCCTATTTTTT
38034 TACTAAAGAT
Statistics
Matches: 213, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
155 40 0.19
156 49 0.23
157 64 0.30
158 43 0.20
159 17 0.08
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.46
Consensus pattern (156 bp):
ATTTTAAGTCCTTTTTTTACCAAATTTGAACCACATGCTCCTAAACCACAGTAGAATACATGTAA
CTTTCAATTCCTATTTTTTATAACAAATTTTTTATTTTTAAATTTAGTCCTTCAATCTTTCATAT
CTCCTTATTCCTTCAATTCGTCATTT
Found at i:39341 original size:19 final size:19
Alignment explanation
Indices: 39317--39354 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39307 TCTAAGTAGG
39317 AGGTATTATTGCAATTATT
1 AGGTATTATTGCAATTATT
39336 AGGTATTATTGCAATTATT
1 AGGTATTATTGCAATTATT
39355 CTTGAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
AGGTATTATTGCAATTATT
Found at i:41485 original size:21 final size:21
Alignment explanation
Indices: 41456--41523 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
41446 ATGAATACGA
41456 TGAA-CAATATCGATACTAAT
1 TGAAGCAATATCGATACTAAT
*
41476 TGAAGTAATATCGATACTAAT
1 TGAAGCAATATCGATACTAAT
*
41497 TGAAGCAATATCGATACTGAT
1 TGAAGCAATATCGATACTAAT
41518 GTGAAG
1 -TGAAG
41524 GTATCGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 4 0.09
21 34 0.79
22 5 0.12
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
TGAAGCAATATCGATACTAAT
Found at i:41530 original size:20 final size:21
Alignment explanation
Indices: 41505--41554 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
41495 ATTGAAGCAA
* *
41505 TATCGATACTGATG-TGAAGG
1 TATCGATACTCAAGATGAAGG
41525 TATCGATAC-CAAGATGAAGG
1 TATCGATACTCAAGATGAAGG
41545 TATCGATACT
1 TATCGATACT
41555 ATAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (21 bp):
TATCGATACTCAAGATGAAGG
Found at i:41543 original size:42 final size:42
Alignment explanation
Indices: 41454--41555 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
41444 ACATGAATAC
*
41454 GATGAA-CAATATCGATACTAATTGAAGTAATATCGATACTAA
1 GATGAAGCAATATCGATACTAATTGAAG-AATATCGATACCAA
* * *
41496 -TTGAAGCAATATCGATACTGATGTGAAG-GTATCGATACCAA
1 GATGAAGCAATATCGATACTAAT-TGAAGAATATCGATACCAA
*
41537 GATGAAG--GTATCGATACTA
1 GATGAAGCAATATCGATACTA
41556 TAATTAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
40 10 0.20
41 15 0.30
42 20 0.40
43 5 0.10
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (42 bp):
GATGAAGCAATATCGATACTAATTGAAGAATATCGATACCAA
Found at i:42074 original size:19 final size:18
Alignment explanation
Indices: 42050--42120 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
42040 AATTATATTT
42050 ATTAATTTTATAAATAGTA
1 ATTAATTTTATAAATA-TA
** *
42069 ATTAATTAAAGAAAATATA
1 ATTAATTTTA-TAAATATA
*
42088 ATTAATTCTTATATA-ATA
1 ATTAATT-TTATAAATATA
*
42106 A-TAATTTTTTAAATA
1 ATTAATTTTATAAATA
42121 ATCTAAACTG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
16 5 0.12
17 6 0.15
18 4 0.10
19 19 0.47
20 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (18 bp):
ATTAATTTTATAAATATA
Found at i:44262 original size:2 final size:2
Alignment explanation
Indices: 44251--44287 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
44241 TAAATTCATA
44251 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44288 TAACTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:44326 original size:25 final size:25
Alignment explanation
Indices: 44292--44357 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
44282 ATATATTAAC
44292 TTAAAAATATTTTAATATTAACTTG
1 TTAAAAATATTTTAATATTAACTTG
* ** *
44317 TTAAATATATTTTGTTATTAACTTAAT
1 TTAAAAATATTTTAATATTAACTT--G
44344 TTAAAAATATTTTA
1 TTAAAAATATTTTA
44358 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 21 0.64
27 12 0.36
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (25 bp):
TTAAAAATATTTTAATATTAACTTG
Found at i:44354 original size:27 final size:27
Alignment explanation
Indices: 44287--44380 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
44277 TATATATATA
* *
44287 TTAACTTAAAAATATTTTAATATTAAC
1 TTAATTTAAAAATATTTTATTATTAAC
* * *
44314 TT--GTTAAATATATTTTGTTATTAAC
1 TTAATTTAAAAATATTTTATTATTAAC
* **
44339 TTAATTTAAAAATATTTTATTTTTATT
1 TTAATTTAAAAATATTTTATTATTAAC
*
44366 TTCATTTAAAAATAT
1 TTAATTTAAAAATAT
44381 ATATTTTATG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.39
27 33 0.61
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (27 bp):
TTAATTTAAAAATATTTTATTATTAAC
Found at i:44556 original size:31 final size:31
Alignment explanation
Indices: 44514--44588 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
44504 TAACCCGTGA
*
44514 TGACCACATCTTAATTAAACAAAAATGAAAG
1 TGACCATATCTTAATTAAACAAAAATGAAAG
*
44545 TGACCATATCTTAATTAAATAAAAATGAAAG
1 TGACCATATCTTAATTAAACAAAAATGAAAG
*
44576 TGATCATATCTTA
1 TGACCATATCTTA
44589 TATTTTTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.29
Consensus pattern (31 bp):
TGACCATATCTTAATTAAACAAAAATGAAAG
Found at i:45001 original size:24 final size:24
Alignment explanation
Indices: 44945--45002 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
44935 ACAATAATTG
* * *
44945 GTGATTTTTCTTGACATAAAAAAA
1 GTGATTTTTTTTAACAAAAAAAAA
** *
44969 GCAAATTTTTTTAACAAAAAAAAA
1 GTGATTTTTTTTAACAAAAAAAAA
44993 GTGATTTTTT
1 GTGATTTTTT
45003 AACTAACAAT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (24 bp):
GTGATTTTTTTTAACAAAAAAAAA
Found at i:52695 original size:23 final size:23
Alignment explanation
Indices: 52669--52713 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52659 CACCACAGCT
*
52669 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
52692 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
52714 ATATTATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:52881 original size:150 final size:149
Alignment explanation
Indices: 52681--52996 Score: 499
Period size: 150 Copynumber: 2.1 Consensus size: 149
52671 TATAAATGCA
* * *
52681 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATTATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAA
*
52745 TTCCTTAAGGATCATATACATATACTAGGGATCAAACATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAACATGTGTCTTT-CAAGACTTCACACATGT
* *
52810 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
*
52831 CCGAAGGACCGCATAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
* **
52896 TCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAACATGTGTCTTTCAAGACTTCACACATGTTC
*
52961 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
*
52980 CCGAAGAACCGCGTAGA
1 CCGAAGGACCGCGTAGA
52997 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
149 51 0.34
150 101 0.66
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATATCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAACATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:53584 original size:64 final size:63
Alignment explanation
Indices: 53451--53607 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 63
53441 TAATGAGGGT
* * * ** *
53451 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
53515 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
53577 G
63 G
*
53578 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
53608 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 68 0.86
65 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:59736 original size:23 final size:23
Alignment explanation
Indices: 59710--59754 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
59700 CACCACAGCT
* *
59710 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATACACCGAAGTGCCG
* *
59733 CGTAGAATTACACCGTAGTGCC
1 CGTAGAAATACACCGAAGTGCC
59755 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCG
Found at i:60627 original size:64 final size:63
Alignment explanation
Indices: 60494--60650 Score: 149
Period size: 64 Copynumber: 2.4 Consensus size: 63
60484 TAATGAGGGT
* * * ** *
60494 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTACTGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
60558 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
60620 G
63 G
* *
60621 AGTGCATCAATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
60651 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
63 3 0.04
64 67 0.86
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:62985 original size:248 final size:248
Alignment explanation
Indices: 62547--63037 Score: 876
Period size: 248 Copynumber: 2.0 Consensus size: 248
62537 TCAAAAAAAA
* * *
62547 TTTAAAGCACAGAAAGGGGCTTTCAACAGTCAAAGTTTTATGCCACGACATTTTAAGAATTCTCT
1 TTTAAAGCACAAAAAGGGGCTTTCAACAGTAAAAGTTATATGCCACGACATTTTAAGAATTCTCT
* * *
62612 TATAAAAAATTCCTAGATTCCTCAAGCATGGAAAGCATACAATCGTGTATTCAAGAATTTCAGAG
66 TATAAAAAATTCCTAAATTCCTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAG
*
62677 AAACAAGTCCTAGGATTGGTTCTATCATCCTCAACTAGTCATGTACATTCTATCCTAGCCATCAA
131 AAACAAGTCCTAGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAA
*
62742 ATTCATCATCATTGGGCATCCTTAACTAATTCCAGAAAATTATTCAGGCATTT
196 ATTCATCATCATTGGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCATTT
*
62795 TTTAAAGCATAAAAAGGGGCTTTCAACAGTAAAAGTTATATGCCACGACATTTTAAGAATTCTCT
1 TTTAAAGCACAAAAAGGGGCTTTCAACAGTAAAAGTTATATGCCACGACATTTTAAGAATTCTCT
62860 TATAAAAAATTCCTAAATTCCTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAG
66 TATAAAAAATTCCTAAATTCCTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAG
62925 AAACAAGTCCTAAGG-TTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCA
131 AAACAAGTCCT-AGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCA
*
62989 AATTCATCATCGTTGGGCATCCTTAACTAATTCCAGAAAACTATTCAGG
195 AATTCATCATCATTGGGCATCCTTAACTAATTCCAGAAAACTATTCAGG
63038 AAATTACTAA
Statistics
Matches: 232, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
248 229 0.99
249 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.30
Consensus pattern (248 bp):
TTTAAAGCACAAAAAGGGGCTTTCAACAGTAAAAGTTATATGCCACGACATTTTAAGAATTCTCT
TATAAAAAATTCCTAAATTCCTCAAGCATGGAAAGAATACAATCATGTATTCAAGAATTTCAGAG
AAACAAGTCCTAGGATTGGTTCTATCATCCTCAACCAGTCATGTACATTCTATCCTAGCCATCAA
ATTCATCATCATTGGGCATCCTTAACTAATTCCAGAAAACTATTCAGGCATTT
Found at i:73291 original size:14 final size:14
Alignment explanation
Indices: 73272--73304 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
73262 AAGTCACATC
73272 TATTCAATTATACT
1 TATTCAATTATACT
73286 TATTCAATTATACT
1 TATTCAATTATACT
73300 TATTC
1 TATTC
73305 TACAAATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTCAATTATACT
Found at i:73345 original size:21 final size:21
Alignment explanation
Indices: 73321--73360 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
73311 TATCTTCACT
73321 AAAAGGTCTTAACTATTCATC
1 AAAAGGTCTTAACTATTCATC
*
73342 AAAAGGTCTTAACTTTTCA
1 AAAAGGTCTTAACTATTCA
73361 ATCCTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
AAAAGGTCTTAACTATTCATC
Found at i:79491 original size:22 final size:22
Alignment explanation
Indices: 79463--79510 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
79453 ATGATATACA
*
79463 AACACTAAAACAACGCTAAATG
1 AACACTAAAACAACGCTAAACG
**
79485 AACACTAAATGAACGCTAAACG
1 AACACTAAAACAACGCTAAACG
79507 AACA
1 AACA
79511 TGAACACGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.23, G:0.10, T:0.12
Consensus pattern (22 bp):
AACACTAAAACAACGCTAAACG
Found at i:79492 original size:11 final size:11
Alignment explanation
Indices: 79463--79510 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
79453 ATGATATACA
**
79463 AACACTAAAAC
1 AACACTAAATG
*
79474 AACGCTAAATG
1 AACACTAAATG
79485 AACACTAAATG
1 AACACTAAATG
* *
79496 AACGCTAAACG
1 AACACTAAATG
79507 AACA
1 AACA
79511 TGAACACGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.54, C:0.23, G:0.10, T:0.12
Consensus pattern (11 bp):
AACACTAAATG
Found at i:79561 original size:23 final size:24
Alignment explanation
Indices: 79512--79562 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
79502 AAACGAACAT
*
79512 GAACACGTTCATGAGCATATAAAC
1 GAACACGTTCATGAACATATAAAC
79536 GAACACGTTCATGAACAT-TAAAC
1 GAACACGTTCATGAACATATAAAC
79559 GAAC
1 GAAC
79563 GCTAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.20
Consensus pattern (24 bp):
GAACACGTTCATGAACATATAAAC
Found at i:81773 original size:2 final size:2
Alignment explanation
Indices: 81766--81806 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
81756 GATATAACAT
* *
81766 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
81807 CACACATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:82243 original size:29 final size:30
Alignment explanation
Indices: 82201--82266 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
82191 CCCGAAGGAC
82201 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCACAAAGATCCCCGGTAA
* *
82230 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCACAAAGATCCCCGGTAA
*
82260 CTGTCCA
1 CTATCCA
82267 TAAGGACCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGATCCCCGGTAA
Found at i:83285 original size:25 final size:25
Alignment explanation
Indices: 83256--83307 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
83246 TTATGCATGA
*
83256 TGCATA-ATTGCATCGATGCACTAAT
1 TGCATATA-TGCATCGATGCACGAAT
*
83281 TGCATTTATGCATCGATGCACGAAT
1 TGCATATATGCATCGATGCACGAAT
83306 TG
1 TG
83308 TATTCGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TGCATATATGCATCGATGCACGAAT
Found at i:83292 original size:17 final size:16
Alignment explanation
Indices: 83249--83285 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
83239 GTATTATTTA
83249 TGCAT-GATGCATAAT
1 TGCATCGATGCATAAT
83264 TGCATCGATGCACTAAT
1 TGCATCGATGCA-TAAT
83281 TGCAT
1 TGCAT
83286 TTATGCATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 6 0.30
17 9 0.45
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (16 bp):
TGCATCGATGCATAAT
Found at i:84406 original size:10 final size:10
Alignment explanation
Indices: 84366--84410 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
84356 GGGGTACATA
84366 ATGCGGTCTG
1 ATGCGGTCTG
* *
84376 ATGCGATCCG
1 ATGCGGTCTG
84386 ATGCGG-CTG
1 ATGCGGTCTG
*
84395 ATGCGGTTTG
1 ATGCGGTCTG
84405 ATGCGG
1 ATGCGG
84411 GCCGATGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 8 0.28
10 21 0.72
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (10 bp):
ATGCGGTCTG
Found at i:84940 original size:16 final size:16
Alignment explanation
Indices: 84915--84953 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
84905 TAGATAAGTT
* *
84915 CTTTTTGTTGCAATAG
1 CTTTTAGTTGCAAAAG
84931 CTTTTAGTTGCAAAAG
1 CTTTTAGTTGCAAAAG
84947 CTTTTAG
1 CTTTTAG
84954 CTTTTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (16 bp):
CTTTTAGTTGCAAAAG
Found at i:84940 original size:112 final size:112
Alignment explanation
Indices: 84743--85020 Score: 502
Period size: 112 Copynumber: 2.5 Consensus size: 112
84733 ATGTGTACTA
84743 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
*
84808 TGTTACAATATCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
66 TGTTACAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
84855 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
1 AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
*
84920 TGTTGCAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
66 TGTTACAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
*
84967 AAACAAGTTGTTTTTTTTTGTTGCTTAAATGAATGAATTGTTTTTACGTCCTAT
1 AAACAAGTTG---TTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTAT
85021 GATTTTACTG
Statistics
Matches: 160, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
112 120 0.75
115 40 0.25
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (112 bp):
AAACAAGTTGTTTTTTGTTGCTTAAATGAATGAACTGTTTTTACGTCCTATAGATAAGTTCTTTT
TGTTACAATAGCTTTTAGTTGCAAAAGCTTTTAGCTTTTAGAAACAT
Found at i:90118 original size:29 final size:29
Alignment explanation
Indices: 90072--90130 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
90062 AATTGACACA
* *
90072 TAAATTCTAGATAGAATACTAATTAAACC
1 TAAATTCTACATAAAATACTAATTAAACC
* *
90101 TAAATTTTACATAAAATACTAATTTAACC
1 TAAATTCTACATAAAATACTAATTAAACC
90130 T
1 T
90131 TTGAACTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAATTCTACATAAAATACTAATTAAACC
Found at i:91841 original size:21 final size:22
Alignment explanation
Indices: 91798--91842 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
91788 ATAATATATT
* * *
91798 TTTATTTTTAATTCTTTATAAA
1 TTTATCTTTAAATCTTTACAAA
91820 TTTATCTTTAAAT-TTTACAAA
1 TTTATCTTTAAATCTTTACAAA
91841 TT
1 TT
91843 CGTCCTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATCTTTAAATCTTTACAAA
Found at i:93467 original size:2 final size:2
Alignment explanation
Indices: 93460--93484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93450 TTTAAGATGA
93460 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93485 AATACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93504 original size:27 final size:26
Alignment explanation
Indices: 93474--93538 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 26
93464 ATATATATAT
*
93474 ATATATATATAAATACAATA-ATGCTAA
1 ATATATATATAAATA-AATATA-ACTAA
* * *
93501 ATATTTGTATAAAATAAATATAACTAT
1 ATATATATAT-AAATAAATATAACTAA
93528 ATATATATATA
1 ATATATATATA
93539 GTTAATGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 1 0.03
27 23 0.77
28 6 0.20
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
ATATATATATAAATAAATATAACTAA
Found at i:95536 original size:16 final size:16
Alignment explanation
Indices: 95515--95545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95505 TAATATTGAA
95515 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
95531 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
95546 AAATTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:97261 original size:17 final size:17
Alignment explanation
Indices: 97239--97282 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
97229 ATGTAAAAAT
97239 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
97256 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
97273 AAATATTTAA
1 AAATATTTAA
97283 TCAAGTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:99329 original size:18 final size:17
Alignment explanation
Indices: 99308--99372 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
99298 CCTACAAAAT
99308 TAAAAATAAAATCATTAA
1 TAAAAATAAAAT-ATTAA
99326 TAAACAATTCAAAATATTAA
1 TAAA-AA-T-AAAATATTAA
* * *
99346 TGAAATTAAAATAAATAA
1 TAAAAATAAAAT-ATTAA
99364 T-AAAATAAA
1 TAAAAATAAA
99373 TAATATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 12 0.31
18 10 0.26
19 3 0.08
20 9 0.23
21 5 0.13
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAAAATAAAATATTAA
Found at i:99369 original size:12 final size:12
Alignment explanation
Indices: 99352--99377 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99342 TTAATGAAAT
99352 TAAAATAAATAA
1 TAAAATAAATAA
99364 TAAAATAAATAA
1 TAAAATAAATAA
99376 TA
1 TA
99378 TATTTACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:102293 original size:23 final size:23
Alignment explanation
Indices: 102259--102326 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
102249 CATCTTATAT
102259 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * *
102282 GGCACTTAGGTGTAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
* *
102305 GGCAATTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
102327 AGCTGTGGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:102691 original size:2 final size:2
Alignment explanation
Indices: 102678--102723 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
102668 AATATGTATG
102678 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
102721 TA T
1 TA T
102724 TATGTTTAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105168 original size:46 final size:46
Alignment explanation
Indices: 105055--105194 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 46
105045 TCAATTATGC
* * * *
105055 AAGAGGAACAGAAGAA-GAAAAGTCTCAT-TAAGATTTAGAGTTAGAG
1 AAGATGAACAGAA-AATGAAGAGTCTC-TGTTAGATTTAGGGTTAGAG
* * *
105101 AAGATGAATAGAATATGAAGAGT-TTTAGTTAGATTTAGGGTTAGAG
1 AAGATGAACAGAAAATGAAGAGTCTCT-GTTAGATTTAGGGTTAGAG
* *
105147 AAGATGAACATAAGAAT-AAGAGTCTCTGTTAGATTTAGGGTTAAAG
1 AAGATGAACAGAA-AATGAAGAGTCTCTGTTAGATTTAGGGTTAGAG
105193 AA
1 AA
105195 TAAGAAGATG
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 70 0.91
47 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.26, T:0.26
Consensus pattern (46 bp):
AAGATGAACAGAAAATGAAGAGTCTCTGTTAGATTTAGGGTTAGAG
Found at i:105237 original size:26 final size:26
Alignment explanation
Indices: 105196--105291 Score: 140
Period size: 26 Copynumber: 3.7 Consensus size: 26
105186 GTTAAAGAAT
105196 AAGAAGATGAATAATACTTGGAGGAG
1 AAGAAGATGAATAATACTTGGAGGAG
* * *
105222 GAGGAGATGAACAATACTTGGAGGAG
1 AAGAAGATGAATAATACTTGGAGGAG
*
105248 AAGAAGATGAATAGTACTTGG-GGAAG
1 AAGAAGATGAATAATACTTGGAGG-AG
105274 AAGAAGATGAATAATACT
1 AAGAAGATGAATAATACT
105292 CAGTTATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 2 0.03
26 59 0.97
ACGTcount: A:0.45, C:0.05, G:0.31, T:0.19
Consensus pattern (26 bp):
AAGAAGATGAATAATACTTGGAGGAG
Found at i:105668 original size:101 final size:101
Alignment explanation
Indices: 105554--105738 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 101
105544 AGAAAAGATA
* * * *
105554 AACACGGGTTGAGTTTTAGGT-TTTGATCTAAAAAATAGGTTAGGTATTGGATTTTGGTGTTTAT
1 AACACGGGTTGAGTTTTAGCTGTTTGAT-AAAAAAACAGGTTAGATATTGGATTTTGGTGTTTAT
*
105618 A-AGAATCAAATGAGGGTTTTAGTGATGAACACGGATG
65 AGAG-ATCAAATGAGGATTTTAGTGATGAACACGGATG
* * * * * *
105655 AACATGGGTTGAGTTTTTGCTGTTTGATAAAAAAACAGGTTTGATCTTGGGTTTTGGTGTTTGTA
1 AACACGGGTTGAGTTTTAGCTGTTTGATAAAAAAACAGGTTAGATATTGGATTTTGGTGTTTATA
105720 GAGATCAAATGAGGATTTT
66 GAGATCAAATGAGGATTTT
105739 GGGGATAAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
101 63 0.89
102 8 0.11
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.38
Consensus pattern (101 bp):
AACACGGGTTGAGTTTTAGCTGTTTGATAAAAAAACAGGTTAGATATTGGATTTTGGTGTTTATA
GAGATCAAATGAGGATTTTAGTGATGAACACGGATG
Found at i:106196 original size:48 final size:47
Alignment explanation
Indices: 106144--106366 Score: 109
Period size: 55 Copynumber: 4.5 Consensus size: 47
106134 ACATTCAATG
106144 TATATAAATTATAAGTATT-AATATAAACTATATATATTTAATATATA
1 TATATAAATTAT-AGTATTAAATATAAACTATATATATTTAATATATA
** * * *** * * * *
106191 CTATATGTATGAT-GTA-TGAATATGTTC-ATGTGTGTAT-ATATATA
1 -TATATAAATTATAGTATTAAATATAAACTATATATATTTAATATATA
*
106235 TATATATATTATATAGTATATAAATATAAACTATATAGTATATATATATATATATA
1 TATATA-AAT-TATAGTAT-TAAATATAAAC--TATA-TATAT-T-TA-ATATATA
* *
106291 TATATAAACTTATAGTATTTAAATATAAACTATATA-ATTTATACATAGTT
1 TATATAAA-TTATAGTA-TTAAATATAAACTATATATATTTA-ATATA-TA
*
106341 TATATAAACTATATAGT-TTATATATA
1 TATATAAA-T-TATAGTATTAAATATA
106367 GTATATAAAT
Statistics
Matches: 131, Mismatches: 26, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
43 5 0.04
44 8 0.06
45 9 0.07
46 12 0.09
48 16 0.12
49 15 0.11
50 12 0.09
51 10 0.08
52 5 0.04
53 4 0.03
54 1 0.01
55 19 0.15
56 15 0.11
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (47 bp):
TATATAAATTATAGTATTAAATATAAACTATATATATTTAATATATA
Found at i:106230 original size:2 final size:2
Alignment explanation
Indices: 106225--106510 Score: 103
Period size: 2 Copynumber: 141.0 Consensus size: 2
106215 TTCATGTGTG
* *
106225 TA TA TA TA TA TA TA TA TA T- TA TA TA GTA TA TA AA TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* *
106268 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA AA CT- TA TA GTA TT
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * * *
106310 TA AA TA TA AA CTA TA TA -A TT TA TA CA TA GTT TA TA TA AA CTA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA
* * *
106352 TA TA GTT TA TA TA TA GTA TA TA AA TA TA AA T- TA TA -A GTA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
106393 TA AA TA T- TA -A CTA TA TA -A TT TG TA TA TA AA CTA TA TA GTA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA
* * * * *
106433 TA TA -A TA TA -A TT TA CA -A GTA TA TA AA TA TA AA CTA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA
* * *
106475 TA TA TA TA AA T- TA TA TA -A TA TA TA AA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106511 AGTATACAAA
Statistics
Matches: 206, Mismatches: 48, Indels: 60
0.66 0.15 0.19
Matches are distributed among these distances:
1 13 0.06
2 172 0.83
3 21 0.10
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:106399 original size:83 final size:84
Alignment explanation
Indices: 106258--106498 Score: 246
Period size: 83 Copynumber: 2.9 Consensus size: 84
106248 TAGTATATAA
* *
106258 ATATAAACTATATAGTATATATATATATATATATATATAAACTTATAGTATTTAAATATAAACTA
1 ATATAAACTATATAGTATATATATATATATATAAATATAAACTTATAGTATATAAATATAAACTA
106323 TATAATTTATACATAGTTT
66 TATAATTTATACATAGTTT
*
106342 ATATAAACTATATAGT-T-TATATATAGTATATAAATATAAA-TTATAAGTATATAAATATTAAC
1 ATATAAACTATATAGTATATATATATA-TATATAAATATAAACTTAT-AGTATATAAATATAAAC
* * ***
106404 TATATAATTTGTATATAAACT
64 TATATAATTTATACATAGTTT
* * * * *
106425 ATAT--AGTATATAATATA-ATTTACAAGTATATAAATATAAACTATATAGT-T-TATATATAAA
1 ATATAAACTATATAGTATATATATA-TA-TATATAAATATAAACT-TATAGTATATAAATATAAA
* *
106485 TTATATAATATATA
63 CTATATAATTTATA
106499 AATATAAATA
Statistics
Matches: 133, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
81 8 0.06
82 36 0.27
83 66 0.50
84 20 0.15
85 3 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (84 bp):
ATATAAACTATATAGTATATATATATATATATAAATATAAACTTATAGTATATAAATATAAACTA
TATAATTTATACATAGTTT
Found at i:106434 original size:7 final size:7
Alignment explanation
Indices: 106424--106753 Score: 71
Period size: 7 Copynumber: 47.6 Consensus size: 7
106414 GTATATAAAC
*
106424 TATATAG
1 TATATAA
106431 TATAT-A
1 TATATAA
106437 -ATATAA
1 TATATAA
* *
106443 TTTACAA
1 TATATAA
106450 GTATATAA
1 -TATATAA
106458 -ATATAAA
1 TATAT-AA
*
106465 CTATATAG
1 -TATATAA
*
106473 TTTAT-A
1 TATATAA
106479 TATA-AA
1 TATATAA
106485 TTATATAA
1 -TATATAA
106493 TATATAA
1 TATATAA
106500 -ATATAA
1 TATATAA
106506 -ATATAA
1 TATATAA
*
106512 GTATACAA
1 -TATATAA
106520 -ATATAA
1 TATATAA
106526 -ACTAT-A
1 TA-TATAA
106532 TAGT-TAA
1 TA-TATAA
*
106539 TATATAG
1 TATATAA
*
106546 TACACT--
1 TATA-TAA
*
106552 TAGT-TTA
1 TA-TATAA
*
106559 TATATAG
1 TATATAA
*
106566 TTTATAA
1 TATATAA
*
106573 CTATAAAA
1 -TATATAA
*
106581 TATATAG
1 TATATAA
106588 TATATAAA
1 TATAT-AA
*
106596 TATGTAA
1 TATATAA
106603 TATATAGA
1 TATATA-A
* *
106611 CTACA-AG
1 -TATATAA
*
106618 TATAAAA
1 TATATAA
106625 TATA-AA
1 TATATAA
* *
106631 CTATGTAG
1 -TATATAA
106639 TATATAA
1 TATATAA
*
106646 -ACTACAA
1 TA-TATAA
106653 GTATATAA
1 -TATATAA
106661 -ATATAAA
1 TATAT-AA
106668 CTATATAA
1 -TATATAA
106676 TATATAA
1 TATATAA
106683 -ACTATAA
1 TA-TATAA
106690 GTATATAA
1 -TATATAA
106698 T-TATAA
1 TATATAA
106704 CTATATAA
1 -TATATAA
* *
106712 TTTATACG
1 TATATA-A
106720 TAT-T-A
1 TATATAA
*
106725 TAT-TAT
1 TATATAA
106731 TATATAA
1 TATATAA
*
106738 TATA-CA
1 TATATAA
106744 TAT-TAA
1 TATATAA
106750 TATA
1 TATA
106754 ATATAATTGT
Statistics
Matches: 236, Mismatches: 44, Indels: 86
0.64 0.12 0.23
Matches are distributed among these distances:
5 9 0.04
6 60 0.25
7 109 0.46
8 45 0.19
9 13 0.06
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (7 bp):
TATATAA
Found at i:106461 original size:62 final size:62
Alignment explanation
Indices: 106361--106544 Score: 253
Period size: 62 Copynumber: 3.0 Consensus size: 62
106351 ATATAGTTTA
* *
106361 TATATAGTATATAAATATAAATTATAAGTATATAAATATTAACTATATAATTTGTATATAAAC
1 TATATAGTATATAAATAT-AATTATAAGTATATAAATATAAACTATATAATTTATATATAAAC
* * *
106424 TATATAGTATAT-AATATAATTTACAAGTATATAAATATAAACTATATAGTTTATATATAAAT
1 TATATAGTATATAAATATAA-TTATAAGTATATAAATATAAACTATATAATTTATATATAAAC
* * * * *
106486 TATATAATATATAAATATAAATATAAGTATACAAATATAAACTATATAGTTAATATATA
1 TATATAGTATATAAATATAATTATAAGTATATAAATATAAACTATATAATTTATATATA
106545 GTACACTTAG
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
61 2 0.02
62 88 0.81
63 19 0.17
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (62 bp):
TATATAGTATATAAATATAATTATAAGTATATAAATATAAACTATATAATTTATATATAAAC
Found at i:106463 original size:145 final size:138
Alignment explanation
Indices: 106225--106535 Score: 351
Period size: 145 Copynumber: 2.2 Consensus size: 138
106215 TTCATGTGTG
* * *
106225 TATA-TATATATATATATATTATATAGTATATAAATATAAACTATATAGTATATATATATATATA
1 TATAGTATATAAATATAAATTATATAGTATATAAATATAAACTATATAGTATATAAATATATATA
* * **
106289 TATATATAAACTTATAGTATTTAAATATAAACTATATAATTTATACATAGTTTATATAA-ACTAT
66 TATATATAAACTTAAAGTATATAAATATAAACTATATAATTTATACATAAATTATATAATA-TAT
* * *
106353 ATAGTTTATA
130 A-AATATAAA
*
106363 TATAGTATATAAATATAAATTATA-AGTATATAAATATTAACTATATAATTTGTATATAAACTAT
1 TATAGTATATAAATATAAATTATATAGTATATAAATATAAACTATAT-A---GTATATAAA-TAT
* * *
106427 ATAGTATATA-ATATAATTTACAAGTATATAAATATAAACTATATAGTTTATATATAAATTATAT
61 ATA-TATATATATA-AACTTA-AAGTATATAAATATAAACTATATAATTTATACATAAATTATAT
106491 AATATATAAATATAAA
123 AATATATAAATATAAA
* *
106507 TATAAGTATACAAATATAAACTATATAGT
1 TAT-AGTATATAAATATAAATTATATAGT
106536 TAATATATAG
Statistics
Matches: 145, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
138 25 0.17
139 18 0.12
142 8 0.06
143 9 0.06
144 19 0.13
145 62 0.43
146 4 0.03
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (138 bp):
TATAGTATATAAATATAAATTATATAGTATATAAATATAAACTATATAGTATATAAATATATATA
TATATATAAACTTAAAGTATATAAATATAAACTATATAATTTATACATAAATTATATAATATATA
AATATAAA
Found at i:106543 original size:20 final size:20
Alignment explanation
Indices: 106234--106544 Score: 83
Period size: 20 Copynumber: 15.3 Consensus size: 20
106224 GTATATATAT
* *
106234 ATATATATATTATATAGTATA
1 ATATATAAACTATATAGT-TA
*
106255 TAAATATAAACTATATAG-T-
1 -ATATATAAACTATATAGTTA
*
106274 ATATATATA-TATATA--T-
1 ATATATAAACTATATAGTTA
*
106290 ATATATAAACTTATAGTATTTA
1 ATATATAAAC-TATA-TAGTTA
* *
106312 A-ATATAAACTATATAATTT
1 ATATATAAACTATATAGTTA
* *** **
106331 ATACATAGTTTATATAAACT-
1 ATATATAAACTATAT-AGTTA
**
106351 ATATAGTTTA-TATATAGTATA
1 ATATA-TAAACTATATAGT-TA
* *
106372 TAAATATAAATTATA-AGTATA
1 -ATATATAAACTATATAGT-TA
* * * *
106393 TAAATATTAACTATATAATTT
1 -ATATATAAACTATATAGTTA
*
106414 GTATATAAACTATATAG-TA
1 ATATATAAACTATATAGTTA
** *
106433 TATAATATAATTTACA-AGTATA
1 -AT-ATATAAACTATATAGT-TA
* *
106455 TAAATATAAACTATATAGTTT
1 -ATATATAAACTATATAGTTA
* *
106476 ATATATAAATTATATAATATA
1 ATATATAAACTATATAGT-TA
*
106497 TAAATATAAA-TATA-AGTATA
1 -ATATATAAACTATATAGT-TA
*
106517 CAAATATAAACTATATAGTTA
1 -ATATATAAACTATATAGTTA
106538 ATATATA
1 ATATATA
106545 GTACACTTAG
Statistics
Matches: 218, Mismatches: 48, Indels: 48
0.69 0.15 0.15
Matches are distributed among these distances:
16 9 0.04
17 6 0.03
18 11 0.05
19 9 0.04
20 75 0.34
21 65 0.30
22 43 0.20
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
ATATATAAACTATATAGTTA
Found at i:106609 original size:22 final size:22
Alignment explanation
Indices: 106225--106535 Score: 116
Period size: 21 Copynumber: 14.3 Consensus size: 22
106215 TTCATGTGTG
* * *
106225 TATA-TATATATATATATATTA
1 TATAGTATATAAATATAAAATA
*
106246 TATAGTATATAAATATAAACTA
1 TATAGTATATAAATATAAAATA
*
106268 TATAGTATAT--ATAT-ATATA
1 TATAGTATATAAATATAAAATA
* *
106287 TATA-TATATAAACT-TATAGTA
1 TATAGTATATAAA-TATAAAATA
* * * *
106308 TTTA-AATATAAACTATATAATT
1 TATAGTATATAAA-TATAAAATA
* ** *
106330 TATA-CATAGTTTATATAAACTA
1 TATAGTATA-TAAATATAAAATA
*
106352 TATAGTTTATATATAGTATATAAATA
1 TATAG--TATATA-AATATA-AAATA
* *
106378 TA-AAT-TATAAGTATATAAATA
1 TATAGTATATAAATATA-AAATA
* *
106399 T-TAACTATATAATTTGTATATAAACTA
1 TAT-AGTATATAA-----ATATAAAATA
**
106426 TATAGTATAT-AATATAATTTA
1 TATAGTATATAAATATAAAATA
* *
106447 CA-AGTATATAAATATAAACTA
1 TATAGTATATAAATATAAAATA
* *
106468 TATAGT-T-TATATATAAATTA
1 TATAGTATATAAATATAAAATA
*
106488 TATAATATATAAATAT-AAATA
1 TATAGTATATAAATATAAAATA
* *
106509 TA-AGTATACAAATATAAACTA
1 TATAGTATATAAATATAAAATA
106530 TATAGT
1 TATAGT
106536 TAATATATAG
Statistics
Matches: 220, Mismatches: 43, Indels: 53
0.70 0.14 0.17
Matches are distributed among these distances:
18 5 0.02
19 7 0.03
20 40 0.18
21 65 0.30
22 63 0.29
23 8 0.04
24 1 0.00
25 8 0.04
26 7 0.03
27 11 0.05
28 5 0.02
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TATAGTATATAAATATAAAATA
Found at i:106626 original size:22 final size:22
Alignment explanation
Indices: 106558--106628 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
106548 CACTTAGTTT
* * *
106558 ATATATAGTTTATAACTATAAA
1 ATATATAGTATACAAATATAAA
* **
106580 ATATATAGTATATAAATATGTA
1 ATATATAGTATACAAATATAAA
*
106602 ATATATAG-ACTACAAGTATAAA
1 ATATATAGTA-TACAAATATAAA
106624 ATATA
1 ATATA
106629 AACTATGTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
ATATATAGTATACAAATATAAA
Found at i:106643 original size:36 final size:36
Alignment explanation
Indices: 106589--106717 Score: 163
Period size: 36 Copynumber: 3.6 Consensus size: 36
106579 AATATATAGT
*
106589 ATATAAA-TATGTAATATATAGACTACAAGTATAAA
1 ATATAAACTATGTAATATATAAACTACAAGTATAAA
*
106624 ATATAAACTATGTAGTATATAAACTACAAGTATATAA
1 ATATAAACTATGTAATATATAAACTACAAGTATA-AA
* * *
106661 ATATAAACTATATAATATATAAACTATAAGTATATA
1 ATATAAACTATGTAATATATAAACTACAAGTATAAA
* *
106697 AT-TATAACTATATAATTTATA
1 ATATA-AACTATGTAATATATA
106718 CGTATTATAT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
35 9 0.11
36 42 0.50
37 33 0.39
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (36 bp):
ATATAAACTATGTAATATATAAACTACAAGTATAAA
Found at i:106694 original size:29 final size:29
Alignment explanation
Indices: 106656--106711 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
106646 ACTACAAGTA
106656 TATAAATATA-AACTATATAA-TATATAAAC
1 TATAAATATATAA-T-TATAACTATATAAAC
*
106685 TATAAGTATATAATTATAACTATATAA
1 TATAAATATATAATTATAACTATATAA
106712 TTTATACGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 17 0.71
30 2 0.08
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (29 bp):
TATAAATATATAATTATAACTATATAAAC
Found at i:106705 original size:20 final size:22
Alignment explanation
Indices: 106654--106708 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
106644 AAACTACAAG
*
106654 TATATAAA-TATAAACTATATAA
1 TATATAAACTAT-AAGTATATAA
106676 TATATAAACTATAAGTATATAA
1 TATATAAACTATAAGTATATAA
106698 T-TAT-AACTATA
1 TATATAAACTATA
106709 TAATTTATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 18 0.58
23 3 0.10
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
TATATAAACTATAAGTATATAA
Found at i:106717 original size:29 final size:28
Alignment explanation
Indices: 106671--106736 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
106661 ATATAAACTA
106671 TATAATATATAAACTATAAGTA-TATAAT
1 TATAATATATAAACTATAAGTATTAT-AT
** *
106699 TATAACTATATAATTTATACGTATTATAT
1 TATAA-TATATAAACTATAAGTATTATAT
*
106728 TATTATATA
1 TATAATATA
106737 ATATACATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 9 0.28
29 20 0.62
30 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (28 bp):
TATAATATATAAACTATAAGTATTATAT
Found at i:106741 original size:24 final size:22
Alignment explanation
Indices: 106705--106760 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
106695 TAATTATAAC
*
106705 TATATAATTTATACGTATTATATTAT
1 TATATAA--TATACATATTA-A-TAT
106731 TATATAATATACATATTAATAT
1 TATATAATATACATATTAATAT
*
106753 AATATAAT
1 TATATAAT
106761 TGTTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 10 0.36
23 1 0.04
24 10 0.36
26 7 0.25
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATAATATACATATTAATAT
Found at i:107728 original size:31 final size:31
Alignment explanation
Indices: 107643--107730 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
107633 TAATACTCAT
* * **
107643 GTGCATTATCTGGATGTAAACCTAACATATT
1 GTGCATTATCTGAATGTAAACCTGACATACA
* * *
107674 GTGCAATATTTGAATGCAAACCTGACATACA
1 GTGCATTATCTGAATGTAAACCTGACATACA
107705 GTGCATTATCTGAATGTAAACCTGAC
1 GTGCATTATCTGAATGTAAACCTGAC
107731 TAGTATATGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (31 bp):
GTGCATTATCTGAATGTAAACCTGACATACA
Found at i:111463 original size:98 final size:99
Alignment explanation
Indices: 111291--111479 Score: 240
Period size: 99 Copynumber: 1.9 Consensus size: 99
111281 ATCTCAAAGT
* * * * *
111291 CATTTTGTGTCATGTTTTTTAAAGTTTATAAACAATTTAATTGGAAAAAATTTAAAGATTGATTT
1 CATTTTGTATCACGTTTTTTAAAGTTTATAAACAATTTAATT-GAAAAAATTCAAACATTAATTT
*
111356 AATAAAAAAA-CCAAAGAATAATTTAACCAAATTA
65 AATAAAAAAATCCAAAGAACAATTTAACCAAATTA
* * *
111390 CATTTTGTATCACGTTTTTT-AGGTTTGTAGACAATTTAATT-AAAAAATTCAAACATTAATTTA
1 CATTTTGTATCACGTTTTTTAAAGTTTATAAACAATTTAATTGAAAAAATTCAAACATTAATTT-
*
111453 ATATAAAAAAATTCAAAGAACAATTTA
65 A-ATAAAAAAATCCAAAGAACAATTTA
111480 TTTAAATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
96 18 0.23
97 1 0.01
98 27 0.35
99 31 0.40
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (99 bp):
CATTTTGTATCACGTTTTTTAAAGTTTATAAACAATTTAATTGAAAAAATTCAAACATTAATTTA
ATAAAAAAATCCAAAGAACAATTTAACCAAATTA
Found at i:111477 original size:27 final size:25
Alignment explanation
Indices: 111420--111485 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 25
111410 AGGTTTGTAG
111420 ACAATTTAATTAAAAAATTCAAACA
1 ACAATTTAATTAAAAAATTCAAACA
** *
111445 TTAATTTAATATAAAAAAATTCAAAGA
1 ACAATTTAAT-T-AAAAAATTCAAACA
*
111472 ACAATTTATTTAAA
1 ACAATTTAATTAAA
111486 TTATAAAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 11 0.33
26 2 0.06
27 20 0.61
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (25 bp):
ACAATTTAATTAAAAAATTCAAACA
Found at i:111552 original size:9 final size:9
Alignment explanation
Indices: 111538--111563 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
111528 CATGGACTCT
111538 ATTAGGACC
1 ATTAGGACC
111547 ATTAGGACC
1 ATTAGGACC
111556 ATTAGGAC
1 ATTAGGAC
111564 GGACACAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (9 bp):
ATTAGGACC
Found at i:111689 original size:13 final size:13
Alignment explanation
Indices: 111653--111691 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
111643 CAAATATTAT
*
111653 ATATCAATACAAA
1 ATATCAATATAAA
111666 ATATCATATATAAA
1 ATATCA-ATATAAA
*
111680 ATTTCAATATAA
1 ATATCAATATAA
111692 GCACGAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATCAATATAAA
Found at i:120967 original size:14 final size:14
Alignment explanation
Indices: 120948--120974 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
120938 TTGAACATGG
120948 GAGAGAGAAAAGTA
1 GAGAGAGAAAAGTA
120962 GAGAGAGAAAAGT
1 GAGAGAGAAAAGT
120975 TAAAAGGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.37, T:0.07
Consensus pattern (14 bp):
GAGAGAGAAAAGTA
Found at i:121169 original size:17 final size:19
Alignment explanation
Indices: 121147--121181 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
121137 GCTTTTGTTC
121147 AGTTTG-AGAGGG-AATCT
1 AGTTTGAAGAGGGCAATCT
121164 AGTTTGAAGAGGGCAATC
1 AGTTTGAAGAGGGCAATC
121182 GAGATGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (19 bp):
AGTTTGAAGAGGGCAATCT
Found at i:128388 original size:21 final size:22
Alignment explanation
Indices: 128345--128390 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
128335 AGATTGCTGC
* *
128345 CAGGGAACCGATTCCCCTGCTA
1 CAGGGAACCGATTACCCTACTA
*
128367 CAGGGAACTGA-TACCCTACTA
1 CAGGGAACCGATTACCCTACTA
128388 CAG
1 CAG
128391 TATTTCCGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGGGAACCGATTACCCTACTA
Found at i:128479 original size:22 final size:22
Alignment explanation
Indices: 128441--128483 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
128431 GGTCATCTCT
*
128441 ATACATTTACCATTTACAAAAA
1 ATACATTTAACATTTACAAAAA
128463 ATACATTTAAACA-TTACAAAA
1 ATACATTT-AACATTTACAAAA
128484 CTTGTTCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.30
Consensus pattern (22 bp):
ATACATTTAACATTTACAAAAA
Found at i:143719 original size:17 final size:19
Alignment explanation
Indices: 143699--143733 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
143689 TTTAGAATTA
143699 TTAATTAT-TT-TTTTGTG
1 TTAATTATATTATTTTGTG
143716 TTAATTATATTATTTTGT
1 TTAATTATATTATTTTGT
143734 CTACAGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (19 bp):
TTAATTATATTATTTTGTG
Found at i:143956 original size:13 final size:13
Alignment explanation
Indices: 143938--143984 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
143928 AAATATTTTC
143938 AATATATTTATTT
1 AATATATTTATTT
* *
143951 AATATA-ATAATT
1 AATATATTTATTT
*
143963 AATATATTTATTC
1 AATATATTTATTT
143976 AATATATTT
1 AATATATTT
143985 TCATGTTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATATTTATTT
Found at i:146062 original size:19 final size:19
Alignment explanation
Indices: 146020--146062 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
146010 ATATTATATA
** *
146020 TATATAATATATACTTATG
1 TATATAATATATAAGTATC
*
146039 AATATAATATATAAGTATC
1 TATATAATATATAAGTATC
146058 TATAT
1 TATAT
146063 GCATATATAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (19 bp):
TATATAATATATAAGTATC
Found at i:146182 original size:20 final size:18
Alignment explanation
Indices: 146159--146195 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
146149 AATATATACA
146159 TATACTTATATAATTATATG
1 TATACTTAT-T-ATTATATG
146179 TATACTTATTATTATAT
1 TATACTTATTATTATAT
146196 TTAAATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (18 bp):
TATACTTATTATTATATG
Found at i:160055 original size:21 final size:21
Alignment explanation
Indices: 160031--160071 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
160021 CGTTGTTGGA
*
160031 GGAGGAAGAGGAAGAGGAAGT
1 GGAGGAAGAAGAAGAGGAAGT
*
160052 GGAGGAAGAAGAGGAGGAAG
1 GGAGGAAGAAGAAGAGGAAG
160072 AGTCGGAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (21 bp):
GGAGGAAGAAGAAGAGGAAGT
Found at i:160067 original size:12 final size:12
Alignment explanation
Indices: 160028--160072 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
160018 CTCCGTTGTT
*
160028 GGAGGAGGAAGA
1 GGAGGAAGAAGA
* * *
160040 GGAAGAGGAAGT
1 GGAGGAAGAAGA
160052 GGAGGAAGAAGA
1 GGAGGAAGAAGA
160064 GGAGGAAGA
1 GGAGGAAGA
160073 GTCGGAGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.02
Consensus pattern (12 bp):
GGAGGAAGAAGA
Found at i:161235 original size:106 final size:106
Alignment explanation
Indices: 161050--161264 Score: 430
Period size: 106 Copynumber: 2.0 Consensus size: 106
161040 TACATATTCA
161050 TATCTGTTACTAGTTATTCTGGGATTTATTGAGTGGGAGTCTAACAGAATAGCCTAGAAGCATAT
1 TATCTGTTACTAGTTATTCTGGGATTTATTGAGTGGGAGTCTAACAGAATAGCCTAGAAGCATAT
161115 TATGGGATTCTTTTTCTTTGCGAATTGTGATTTAGTTACTG
66 TATGGGATTCTTTTTCTTTGCGAATTGTGATTTAGTTACTG
161156 TATCTGTTACTAGTTATTCTGGGATTTATTGAGTGGGAGTCTAACAGAATAGCCTAGAAGCATAT
1 TATCTGTTACTAGTTATTCTGGGATTTATTGAGTGGGAGTCTAACAGAATAGCCTAGAAGCATAT
161221 TATGGGATTCTTTTTCTTTGCGAATTGTGATTTAGTTACTG
66 TATGGGATTCTTTTTCTTTGCGAATTGTGATTTAGTTACTG
161262 TAT
1 TAT
161265 GATTCTGTTG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (106 bp):
TATCTGTTACTAGTTATTCTGGGATTTATTGAGTGGGAGTCTAACAGAATAGCCTAGAAGCATAT
TATGGGATTCTTTTTCTTTGCGAATTGTGATTTAGTTACTG
Found at i:166312 original size:18 final size:18
Alignment explanation
Indices: 166286--166330 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
166276 TCACGGAATG
* *
166286 TAAGATTACCGGCGGTAA
1 TAAGATTACCGGAGGGAA
*
166304 TAGGATTACCGGAGGGAA
1 TAAGATTACCGGAGGGAA
166322 TAAGATTAC
1 TAAGATTAC
166331 TGGGAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (18 bp):
TAAGATTACCGGAGGGAA
Found at i:168621 original size:14 final size:13
Alignment explanation
Indices: 168602--168645 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 13
168592 GGCAACTCAT
168602 TTTATTATTTTTTA
1 TTTATT-TTTTTTA
168616 TTTATTTTTTGGTTA
1 TTTATTTTTT--TTA
168631 TTTATTTTTCTTTA
1 TTTATTTTT-TTTA
168645 T
1 T
168646 ATTTTTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.15
14 10 0.37
15 12 0.44
16 1 0.04
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:172164 original size:29 final size:30
Alignment explanation
Indices: 172131--172194 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
172121 TTTGAACATA
* *
172131 TAATAG-TCGAGTGATCATTTTATATCTTT
1 TAATAGTTCGAGAGATCATTTTATAACTTT
*
172160 TAATAGTTTGAGAGATCATTTTATAACTTT
1 TAATAGTTCGAGAGATCATTTTATAACTTT
172190 TAATA
1 TAATA
172195 CTCAGAGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (30 bp):
TAATAGTTCGAGAGATCATTTTATAACTTT
Done.