Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019216.1 Corchorus olitorius cultivar O-4 contig19249, 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: 60110
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:544 original size:19 final size:19
Alignment explanation
Indices: 522--560 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
512 TATTCCCAAA
*
522 TTTTTCCTT-ATTTCCTTT
1 TTTTTTCTTCATTTCCTTT
*
540 TTTTTTCTTCTTTTCCTTT
1 TTTTTTCTTCATTTCCTTT
559 TT
1 TT
561 CCTCTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCTTCATTTCCTTT
Found at i:553 original size:27 final size:27
Alignment explanation
Indices: 523--580 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 27
513 ATTCCCAAAT
523 TTTTCCTTATTTCCT-T-TTTTTTTCTTC
1 TTTTCCTT-TTTCCTCTATTTTTTT-TTC
550 TTTTCCTTTTTCCTCTATTTTTTTTTC
1 TTTTCCTTTTTCCTCTATTTTTTTTTC
577 TTTT
1 TTTT
581 ACCGCTGGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 6 0.21
27 16 0.55
28 7 0.24
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (27 bp):
TTTTCCTTTTTCCTCTATTTTTTTTTC
Found at i:2278 original size:72 final size:72
Alignment explanation
Indices: 2157--2299 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
2147 TGCCCCTCCC
* *
2157 CCCAAACTGCCAAGAATTCTTTCATATATATGCACTTCAAATGAGAAAATTGGAAAATTTATAAT
1 CCCAAACTGCCAAGAATTCTTTCATATATATGCACTTCAAATAAAAAAATTGGAAAATTTATAAT
2222 TTGGCCT
66 TTGGCCT
* * * * *
2229 CCCAAATTGCCAAGAATTCTTTCATATATATGCATTTCAACTAAAAAAATTGGAAAGTTTCTAAT
1 CCCAAACTGCCAAGAATTCTTTCATATATATGCACTTCAAATAAAAAAATTGGAAAATTTATAAT
2294 TTGGCC
66 TTGGCC
2300 CCCTAAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (72 bp):
CCCAAACTGCCAAGAATTCTTTCATATATATGCACTTCAAATAAAAAAATTGGAAAATTTATAAT
TTGGCCT
Found at i:2508 original size:31 final size:31
Alignment explanation
Indices: 2471--2530 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
2461 TTCGTTGAAC
*
2471 TTTTTTCTTTTT-GACTCCTTAAAATAATTCT
1 TTTTTTCTTTTTAG-CTCCTCAAAATAATTCT
*
2502 TTTTTTCTTTTTAGCTTCTCAAAATAATT
1 TTTTTTCTTTTTAGCTCCTCAAAATAATT
2531 TATCTTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.23, C:0.15, G:0.03, T:0.58
Consensus pattern (31 bp):
TTTTTTCTTTTTAGCTCCTCAAAATAATTCT
Found at i:3852 original size:25 final size:25
Alignment explanation
Indices: 3823--3873 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
3813 TAACCCTGAG
3823 TTCCAAATAATATATGGAAGACACA
1 TTCCAAATAATATATGGAAGACACA
3848 TTCCAAATAATATATGGAAGACACA
1 TTCCAAATAATATATGGAAGACACA
3873 T
1 T
3874 GAATATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (25 bp):
TTCCAAATAATATATGGAAGACACA
Found at i:8157 original size:70 final size:70
Alignment explanation
Indices: 8044--8183 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
8034 CGGTTGGACC
* * * *
8044 AGCGGTTGGATCGGGTTCTGACCGGATAAAACTGGTTTGATAGTGAAGAAAATTTGGAAAATTTT
1 AGCGGTTGGACCAGGTTCTGACCGGATAAAACCGGTTTGATAGTGAAGAAAACTTGGAAAATTTT
8109 TTGAA
66 TTGAA
*
8114 AGCGGTTGGACCAGGTTCTGACCGGATAAAACCGGTTTGATAGTGAATAAAACTTGGAAAATTTT
1 AGCGGTTGGACCAGGTTCTGACCGGATAAAACCGGTTTGATAGTGAAGAAAACTTGGAAAATTTT
8179 TTGAA
66 TTGAA
8184 GGTGGTGAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (70 bp):
AGCGGTTGGACCAGGTTCTGACCGGATAAAACCGGTTTGATAGTGAAGAAAACTTGGAAAATTTT
TTGAA
Found at i:14117 original size:12 final size:12
Alignment explanation
Indices: 14100--14129 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
14090 GTAACAAGCA
14100 TTTGCCTGATCT
1 TTTGCCTGATCT
14112 TTTGCCTGATCT
1 TTTGCCTGATCT
14124 TGTTGC
1 T-TTGC
14130 TTCTGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (12 bp):
TTTGCCTGATCT
Found at i:17428 original size:117 final size:114
Alignment explanation
Indices: 17221--17453 Score: 385
Period size: 117 Copynumber: 2.0 Consensus size: 114
17211 TATGTCAGTT
*
17221 GTAATACTTTGGACTTTGCCGTATTTTCTTCCAATTTACTAGTAATAACATTAACCAATTGGTTG
1 GTAATACCTTGGACTTTGCCGTATTTTCTTCCAATTTACTAGTAATAACATTAACCAATTGGTTG
* *
17286 GTTTGTATAGCTTAGCACTTCTTCTGCTTAAACAAGCGTTTAAGATCGA
66 GTTTGTATAGCTTAGCACTTCTTCTGCTTAAACAAACGTTTAAAATCGA
17335 GTAATACCTTGGACTTTGCCGTATTTTCTTCCAATTTACTAGTAATAATAACATTAACCAATTGG
1 GTAATACCTTGGACTTTGCCGTATTTTCTTCCAATTTACTAG---TAATAACATTAACCAATTGG
* * *
17400 TTGGTTTGTATAGTTTAGCACTTGTTCTGCTTAAATAAACGTTTAAAATCGA
63 TTGGTTTGTATAGCTTAGCACTTCTTCTGCTTAAACAAACGTTTAAAATCGA
17452 GT
1 GT
17454 TTTATAAATA
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
114 41 0.37
117 69 0.63
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (114 bp):
GTAATACCTTGGACTTTGCCGTATTTTCTTCCAATTTACTAGTAATAACATTAACCAATTGGTTG
GTTTGTATAGCTTAGCACTTCTTCTGCTTAAACAAACGTTTAAAATCGA
Found at i:22352 original size:22 final size:21
Alignment explanation
Indices: 22327--22489 Score: 89
Period size: 22 Copynumber: 7.5 Consensus size: 21
22317 CTCCTACTTA
22327 CTATGAAATTTTGATAATCTC
1 CTATGAAATTTTGATAATCTC
* *
22348 GCTAT-ATTATTTTGATAACCTCC
1 -CTATGA-AATTTTGATAATCT-C
* *
22371 CTAAGAAATTGTGATAATCTC
1 CTATGAAATTTTGATAATCTC
* *
22392 CATGTGAAACTTTGATAA-CTAC
1 C-TATGAAATTTTGATAATCT-C
*
22414 ACTATGAAATTTTGAT-ACCATC
1 -CTATGAAATTTTGATAATC-TC
* * * *
22436 ATTTGAAATTTTGATAACCAC
1 CTATGAAATTTTGATAATCTC
* * *
22457 ACTATAAAATTGTGATAACCTC
1 -CTATGAAATTTTGATAATCTC
*
22479 TATATGAAATT
1 -CTATGAAATT
22490 AATTTTGATG
Statistics
Matches: 108, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
21 20 0.19
22 84 0.78
23 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (21 bp):
CTATGAAATTTTGATAATCTC
Found at i:22459 original size:43 final size:43
Alignment explanation
Indices: 22356--22489 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 43
22346 TCGCTATATT
* * * *
22356 ATTTTGATAACCTCCCTAAGAAATTGTGATAATCTCCATGTGAA
1 ATTTTGATAACCACACTATGAAATTGTGAT-ACCTCCATGTGAA
* * * *
22400 ACTTTGATAACTACACTATGAAATTTTGATACCAT-CATTTGAA
1 ATTTTGATAACCACACTATGAAATTGTGATACC-TCCATGTGAA
* * *
22443 ATTTTGATAACCACACTATAAAATTGTGATAACCTCTATATGAA
1 ATTTTGATAACCACACTATGAAATTGTGAT-ACCTCCATGTGAA
22487 ATT
1 ATT
22490 AATTTTGATG
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
43 36 0.49
44 37 0.51
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.36
Consensus pattern (43 bp):
ATTTTGATAACCACACTATGAAATTGTGATACCTCCATGTGAA
Found at i:22603 original size:22 final size:22
Alignment explanation
Indices: 22578--22662 Score: 73
Period size: 22 Copynumber: 3.7 Consensus size: 22
22568 ATAACCATAT
22578 TATGAAATTTTGATAACTGCCC
1 TATGAAATTTTGATAACTGCCC
* * *
22600 TATGGAATGTTGATAACTTCCC
1 TATGAAATTTTGATAACTGCCC
* * *
22622 TAT-AGAATTTCGTTAATCTGATCAC
1 TATGA-AATTTTGATAA-CTG--CCC
22647 TATGAAATTTTGATAA
1 TATGAAATTTTGATAA
22663 GCACAATATG
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 30 0.64
23 2 0.04
25 14 0.30
26 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACTGCCC
Found at i:22674 original size:22 final size:22
Alignment explanation
Indices: 22644--22771 Score: 109
Period size: 22 Copynumber: 5.9 Consensus size: 22
22634 TTAATCTGAT
*
22644 CACTATGAAATTTTGATAAGCA
1 CACTATGAAATTTTGATAACCA
* *
22666 CAATATGAAATTTTGATTACC-
1 CACTATGAAATTTTGATAACCA
**
22687 TTCTATGAAATTTTTG-TAACCA
1 CACTATGAAA-TTTTGATAACCA
*
22709 CATTATGAAATTTTGATAACCA
1 CACTATGAAATTTTGATAACCA
*** * *
22731 TGTTATGAAACTTTGGTAGA-CA
1 CACTATGAAATTTTGATA-ACCA
*
22753 CACTATGAAATTTCGATAA
1 CACTATGAAATTTTGATAA
22772 TATGCAAAGT
Statistics
Matches: 82, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
21 17 0.21
22 64 0.78
23 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (22 bp):
CACTATGAAATTTTGATAACCA
Found at i:22700 original size:43 final size:44
Alignment explanation
Indices: 22646--22771 Score: 134
Period size: 44 Copynumber: 2.9 Consensus size: 44
22636 AATCTGATCA
*
22646 CTATGAAATTTTGATAAGCACAATATGAAATTTTGATTACC-T-T
1 CTATGAAATTTTG-TAAGCACAATATGAAATTTTGATAACCATGT
* *
22689 CTATGAAATTTTTGTAACCACATTATGAAATTTTGATAACCATGT
1 CTATGAAA-TTTTGTAAGCACAATATGAAATTTTGATAACCATGT
* * *
22734 -TATGAAACTTTGGT-AGACACACTATGAAATTTCGATAA
1 CTATGAAA-TTTTGTAAG-CACAATATGAAATTTTGATAA
22772 TATGCAAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
43 33 0.46
44 37 0.52
45 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (44 bp):
CTATGAAATTTTGTAAGCACAATATGAAATTTTGATAACCATGT
Found at i:29310 original size:645 final size:634
Alignment explanation
Indices: 27717--30730 Score: 2604
Period size: 645 Copynumber: 4.6 Consensus size: 634
27707 ATACAACGAG
* * *
27717 ATTGAAGGGTTTTTCACGGTTTTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
1 ATTGAAGGGTTTTTCACGCTTCTAAAATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
* * * * *
27782 TCGAAACAAGATTAAGATTCTCATAAAAACAAATCATTAAATCCAATGTGCCTGAGATTTGGTT-
66 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
* * * * * *
27846 CGATGAATATAGATATGTAAAGTAA-CCTTTACGCCAAAAATCATGC-AAA-TTGAGTCGGGGCT
131 C-ATGAATATAGATATTTCAAG-AAGTCTTT-TGCCAAAAATCATGCAAAACTT-AGTCGAGGCC
* * *
27908 CC-AACGCGTTTTTAGACAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTGTTGAAA
192 CCGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTC-G---------GTT--AA
* ** * * * *
27972 AAACTGACTTGAAAAGTTTTTCCTCAGTTCTTTGCCACAATACTCAG-AAAAATATATAATTTAA
245 AAATTGACCCGAAAAGTTTTTCCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
* * *
28036 CGCCAAAAAAATAGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTT--TAATTTATT
310 CGCCAAAAAAATTGAAGGG-TTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCAAATTAATT
* * * *
28099 TTTTATTAAATCGAAACAAGATTCAGATTA-TCGTAAAAACAAATCCATAATTCCAATGTGGCTG
374 TCTAATTAAATCGAAACAAGATTCAGA-TACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTG
*
28163 AGATTTTGTTAGATGAATATAGATATTTCAA-GAGTCTTT-CTGCCAAAAATCATGCAAAACTGA
438 AGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTTAC-GCCAAAAATCATGCAAAACTGA
* * * ** * *
28226 GCTGGGACCCCGAAACGCGTTTTTAGCCCAAAAATCATTAACGTATACA--ATTTCAAATAAAAA
502 GCTGGGACCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGGTATACACGATTTCGACTAAAAA
* ** * * * *
28289 CTAACCCGAATTTTTTTTTGCTAAATTGTTTGCCACAATACTCAGAAAAATTATATAATTCAACA
566 CTAA-CCTAA-AATTTTTTCCT-AATTCTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
28354 CCAAAAA
628 CCAAAAA
** * * * * *
28361 TATTGACTGGCTTTTCACACTACTAATATTAT-TTTTTTCCATTTTTTCGGAATTAATTTCTAAT
1 -ATTGAAGGGTTTTTCACGCTTCTAA-A--ATCGTTTTTCCATTTTTTCCGAATTAATTTCTAAT
* * * *
28425 AAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACCGAG--TT-
62 TAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTG
* * * * *
28487 -TT--ATGAATATAGATATTTCAAGAAATCTTTATGCAAAAAATCATGC-AGA-TGGAGCTGGA-
127 GTTACATGAATATAGATATTTCAAGAAGTCTTT-TGCCAAAAATCATGCAAAACT-TAG-TCGAG
** * * * * *
28546 GCTCTTGAATGCGTTTTTAGCCCAATATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGT
189 GC-CCCGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGG---------T-T
* * * *
28611 AAAAACTGACCCAAAAAGTTTTTCCTTAATTCTTTGCCACAATGCTCAGAAAAAATATATAATTC
243 AAAAATTGACCCGAAAAGTTTTTCCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTC
* * * *
28676 AACGCAAAACAAAATTGAAGGGTTTTCACGCTTCTAATATCATTTTTCCATTTTTTCTAAATTTA
308 AACGCCAAA-AAAATTGAAGGGTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCAAATTAA
* *
28741 TTTCTAATTATATCGAAACAAGATTCAGATACTCGTAAAAA-AGAATCCTTAAATCCAATCTGGC
372 TTTCTAATTAAATCGAAACAAGATTCAGATACTCGTAAAAACA-AATCCTTAAATCCAATGTGGC
* * *
28805 TGAGATTTGGTTAGATGAATATAGAAATCTCAATGATTCTTT-CTGCCAAAAATCATGCAAAACT
436 TGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTTAC-GCCAAAAATCATGCAAAACT
* * * * *
28869 GAG-TCGGGGCCCCAAAACGTGTTTTTAGCCCAAAAACCGTGATGGTTAATACATGAATTCGACT
500 GAGCT-GGGACCCCGAAACGCGTTTTTAG-CCAAAAACCGTGATGG-T-ATACACGATTTCGACT
* *
28933 AAAAACTGACCTAAAATTTTTTCTTCTGAATT-TTATGCCACAATACTTAGAAAAAATATATAAT
561 AAAAACTAACCTAAAATTTTTTC--CT-AATTCTT-TGCCACAATACTCAGAAAAAATATATAAT
*
28997 TCAACTCCAAAAA
622 TCAACGCCAAAAA
* *
29010 ATTGAAGGGCTTTTCACGCTTCTAAAATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAA
1 ATTGAAGGGTTTTTCACGCTTCTAAAATCGTTTTTCCA-TTTTTTCCGAATTAATTTCTAATTAA
* * *
29075 ATCGAAACTAGATTCAGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGCGGAGATTTGGTT
65 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * * * *
29140 AGATTAATATAGATTTTTCAAGAAGTCTTCTTGCCAAAAACCATGCAACACTTATTCGAGGCCCT
130 ACATGAATATAGATATTTCAAGAAGTCTT-TTGCCAAAAATCATGCAAAACTTAGTCGAGGCCCC
* * ** *
29205 GAAACACTTTTTTAGCCAAAAATTGTGATGGTTAATACATGATTTCGGTTAAAAATTGACCCGAA
194 G-AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGTTAAAAATTGACCCGAA
* * * * * **
29270 AATTTTTTTTCTTAATTTTTTGCCATAATACTCTGAAAAAATATAT-ATTCAATGCCAAAAGGAT
258 AA-GTTTTTCCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAAT
* ** * * *
29334 TGGAGAAATTTTCACGCTTCTAATATCGTTTGTCCATTTTGTTCCGAATTAAATTCTAATTAAAT
322 TGAAG-GGTTTTCACGCTTCTAATATCGTTTTTCCATTTT-TTCCAAATTAATTTCTAATTAAAT
* * * * * * * * *
29399 TGAAGCAAGATTCAGATCCTCGTAAAAACAAATCGTTAAATCAAATATGGTTGGGATTTGGTTCG
385 CGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAG
* *
29464 ATGAATATAGATATTTCAATGAGTCTTTACGCCAAAAATCATGCAAAAGTGAGCTGAGG-CTCCG
450 ATGAATATAGATATTTCAATGAGTCTTTACGCCAAAAATCATGCAAAACTGAGCTG-GGACCCCG
* ** * * *
29528 GAACGCGTTTTTAGAGAAAAACCGTGATGG--TACACGATTTCGGCTAAAATTTTGCAAACACTA
514 AAACGCGTTTTTAGCCAAAAACCGTGATGGTATACACGATTTCGACTAAAA----ACTAAC-CTA
* * *
29591 CCCCGAATAATTGTTCCTCAATTCTTTGCCACAATATACTCAGAAAAAACATATAATTCAACGCC
574 -----AA-ATTTTTTCCT-AATTCTTTGCCAC-A-ATACTCAGAAAAAATATATAATTCAACGCC
29656 AAAAA
630 AAAAA
* * *
29661 ACTTGAAGGGTTTTTCACACTTCTAATATCGTTTTTCCA-TTTTTCCTGAATTTATTTCTAATTA
1 A-TTGAAGGGTTTTTCACGCTTCTAAAATCGTTTTTCCATTTTTTCC-GAATTAATTTCTAATTA
*
29725 AATCGAAACAAGATTCAGATACTCGTAAAAACAAAAT-CTTAAATCCAATGTGGCTGAGATTTGG
64 AATCGAAACAAGATTCAGATGCTCGTAAAAAC-AAATCCTTAAATCCAATGTGGCTGAGATTTGG
* * * * * * *
29789 TTACATGAATATAAAAATTTTAAGGAGT-TTTTCTCCGTAAAATCATGCAAAACTTAGTCGGGGC
128 TTACATGAATATAGATATTTCAAGAAGTCTTTT-GCC-AAAAATCATGCAAAACTTAGTCGAGGC
* * *
29853 CCCGAAACGCGTTTTTAGCAAAAAAAAAAAACCCTGATGGTTAGTGCATGATTTCGGCTAAAATT
191 CCCG-AACGCGTTTTTAGC------CAAAAACCGTGATGGTTAGTACATGATTTCGG--------
* * *
29918 TTGCAAAAAATTGACCCGAAAAATTGTTCCTTAATTTTTTTGCCACAATACTCAGTAAAAATATA
241 TT---AAAAATTGACCCGAAAAGTTTTTCCTTAA-TTTTTTGCCACAATACTCAGAAAAAATATA
* * * *
29983 TAATTCAACGCCAAAAATATTGATGGGCTTTTCACGCTTCTAATATTG-TATTCCTATTTTTTTC
302 TAATTCAACGCCAAAAAAATTGAAGGG-TTTTCACGCTTCTAATATCGTTTTTCC-A-TTTTTTC
* * * * * *
30047 CAAATTAATTTATAATTAAATTGAAACAATATTCAGATGCTCGTAAAAACAAAACTTTAAATCCA
364 CAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCA
* * *
30112 ATGTGCCTGAGATTTGGTTCGATGAATATAGATATTTCAATGAGTTTTTACGCCAAAAAAATCAT
429 ATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGTCTTTACGCC--AAAAATCAT
* * ** * * * * * * *
30177 GCAAAATTGAG-TCGTGACATCGCAACGCATTTTCAGCCATAAACTGTGATGATTAATATACGAT
492 GCAAAACTGAGCT-GGGACCCCGAAACGCGTTTTTAGCCAAAAACCGTGATG-GT-ATACACGAT
* * * * *
30241 TTCGGCTAAAATTTTGTAAAAAACTAACCTGAAAAGTTTTTCCTCATTTTTTCCCACAATACTCA
554 TTC-G-----A----CT-AAAAACTAACCT-AAAATTTTTTCCTAATTCTTTGCCACAATACTCA
30306 G-AAAAA-ATATAATTCAACGCCAAAAATA
607 GAAAAAATATATAATTCAACGCC-AAAA-A
* *
30334 ATTGAAGGGTTTTTCACGCTTCTAACATCGTTTTT-CATTTTTTCCCGAAATTAATTT-TAATAA
1 ATTGAAGGGTTTTTCACGCTTCTAAAATCGTTTTTCCATTTTTT-CCG-AATTAATTTCTAATTA
** * *
30397 AATCGAATTAAGATTCATATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGAT
64 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * * * *
30462 TACATGAATATAGATATTTCAAGGAGTCGATATGTCAAAAACCATGCAAAACTGAGCCGAGTCCC
129 TACATGAATATAGATATTTCAAGAAGTC-TTTTGCCAAAAATCATGCAAAACTTAGTCGAGGCCC
* * * * * * *
30527 CGCAACACGATTTTAGCCAAAAACAGTGATCGTTGGTACATGATTTCGGCTAAAAACTTG-CACG
193 CG-AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGTTAAAAA-TTGACCCG
* * * **
30591 AATAA-TTTTTTCTCAATTTTTTGCGACAATACTCAGAAAAAATATATAATT-AGATACCAAAAA
256 AA-AAGTTTTTCCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA-ACGCCAAAAA
* * * * * *
30654 AATTGATTGGCTTTTCACGCTTTTAATATCCTTTTTCCAATTAATTTCCAAATTAATTTCGAATT
319 AATTGA-AGGGTTTTCACGCTTCTAATATCGTTTTTCC-ATT-TTTTCCAAATTAATTTCTAATT
30719 AAATCGAAACAA
381 AAATCGAAACAA
30731 CACTATTTCG
Statistics
Matches: 1948, Mismatches: 293, Indels: 246
0.78 0.12 0.10
Matches are distributed among these distances:
633 1 0.00
640 18 0.01
641 86 0.04
642 59 0.03
643 62 0.03
644 164 0.08
645 263 0.14
646 14 0.01
647 171 0.09
648 29 0.01
649 75 0.04
650 16 0.01
651 171 0.09
652 37 0.02
653 44 0.02
654 109 0.06
655 58 0.03
656 5 0.00
657 26 0.01
658 1 0.00
665 2 0.00
666 26 0.01
667 9 0.00
668 49 0.03
669 146 0.07
670 6 0.00
671 66 0.03
672 168 0.09
673 21 0.01
674 3 0.00
675 20 0.01
676 9 0.00
677 2 0.00
681 2 0.00
682 5 0.00
685 1 0.00
686 4 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (634 bp):
ATTGAAGGGTTTTTCACGCTTCTAAAATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
CATGAATATAGATATTTCAAGAAGTCTTTTGCCAAAAATCATGCAAAACTTAGTCGAGGCCCCGA
ACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGTTAAAAATTGACCCGAAAAG
TTTTTCCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAAATTGAA
GGGTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCAAATTAATTTCTAATTAAATCGAAAC
AAGATTCAGATACTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAAT
ATAGATATTTCAATGAGTCTTTACGCCAAAAATCATGCAAAACTGAGCTGGGACCCCGAAACGCG
TTTTTAGCCAAAAACCGTGATGGTATACACGATTTCGACTAAAAACTAACCTAAAATTTTTTCCT
AATTCTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAA
Found at i:29412 original size:322 final size:319
Alignment explanation
Indices: 27717--30730 Score: 2532
Period size: 322 Copynumber: 9.2 Consensus size: 319
27707 ATACAACGAG
* * *
27717 ATTGAAGGGTTTTTCACGGTTTTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
* * * * * *
27782 TCGAAACAAGATTAAGATTCTCATAAAAACAAATCATTAAATCCAATGTGCCTGAGATTTGGTTC
66 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
* * ** * * * *
27847 GATGAATATAGATATGTAAAGTAACCTTTACGCCAAAAATCATGC-AAATTGAGTCGGGGCTCC-
131 GATGAATATAGATATTTCAAG-AGTCTTTATGCCAAAAATCATGCAAAACTGAGTCGAGGCCCCG
* * * * *
27910 -AACGCGTTTTTAGACAAAAACCATGATGGTTAGTACACGATTTCGGCTAAAATTTGTTGAAAAA
195 AAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAA---ATTG-----
* * * * * *
27974 ACTGACTTGAAAAGTTTTTCCTCAGTTCTTTGCCACAATACTCAG-AAAAATATATAATTTAACG
252 AC---C-CGAAAA-TTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACG
28038 CCAAAAAA
312 CCAAAAAA
* * * * * *
28046 ATAGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTT--TAATTTATTTTTTATTAAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
** * * *
28109 TCGAAACAAGATTCAGATTATCGTAAAAACAAATCCATAATTCCAATGTGGCTGAGATTTTGTTA
66 TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
*
28174 GATGAATATAGATATTTCAAGAGTCTTTCTGCCAAAAATCATGCAAAACTGAG-CTG-GGACCCC
131 GATGAATATAGATATTTCAAGAGTCTTTATGCCAAAAATCATGCAAAACTGAGTC-GAGG-CCCC
* * * ** *** * *
28237 GAAACGCGTTTTTAGCCCAAAAATCATTAACG-T-ATACA--ATTTCAAATAAAAACTAACCCGA
194 GAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAAATTGACCCGA
** * * * * *
28298 ATTTTTTTTTGCTAAATTGTTTGCCACAATACTCAGAAAAATTATATAATTCAACACCAAAAAT
258 A-AATTTTTT-CTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
** * * ** * *
28362 ATTGACTGGCTTTTCACACTACTAATATTATTTTTTTCCATTTTTTCGGAATTAATTTCTAATAA
1 ATTGAAGGGCTTTTCACGCTTCTAATA-T-CGTTTTTCCATTTTTTCCGAATTAATTTCTAATTA
* * *
28427 AATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGACCGAG--TT--T
64 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * *
28488 T--ATGAATATAGATATTTCAAGAAATCTTTATGCAAAAAATCATGC-AGA-TGGAGCTGGA-GC
129 TAGATGAATATAGATATTTCAAG-AGTCTTTATGCCAAAAATCATGCAAAACT-GAG-TCGAGGC
** * * * * * *
28548 TCTTG-AATGCGTTTTTAGCCCAATATCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGTA
191 -CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGC----------TA
* * * * *
28612 AAAACTGACCCAAAAAGTTTTTCCTTAATTCTTTGCCACAATGCTCAGAAAAAATATATAATTCA
245 AAAATTGACCCGAAAA-TTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA
*
28677 ACGCAAAACAAA
309 ACGCCAAA-AAA
* ** * *
28689 ATTGAAGGG-TTTTCACGCTTCTAATATCATTTTTCCATTTTTTCTAAATTTATTTCTAATTATA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
* *
28753 TCGAAACAAGATTCAGATACTCGTAAAAA-AGAATCCTTAAATCCAATCTGGCTGAGATTTGGTT
66 TCGAAACAAGATTCAGATGCTCGTAAAAACA-AATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * *
28817 AGATGAATATAGAAATCTCAATGATTCTTTCTGCCAAAAATCATGCAAAACTGAGTCGGGGCCCC
130 AGATGAATATAGATATTTCAA-GAGTCTTTATGCCAAAAATCATGCAAAACTGAGTCGAGGCCCC
* * * * * *
28882 AAAACGTGTTTTTAGCCCAAAAACCGTGATGGTTAATACATGAATTCGACTAAAAACTGA-CCTA
194 GAAACGCGTTTTTAG-CCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAAATTGACCCGA
* * *
28946 AAATTTTTTCTTCTGAATTTTATGCCACAATACTTAGAAAAAATATATAATTCAACTCC-AAAAA
258 AAATTTTTTC-T-T-AATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
* *
29010 ATTGAAGGGCTTTTCACGCTTCTAAAATTGTTTTTCCATTTTTTTCCGAATTAATTTCTAATTAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTCCGAATTAATTTCTAATTAA
* * *
29075 ATCGAAACTAGATTCAGATGCTCGTAAAAACAAATCTTTAAATCCAATGTGGCGGAGATTTGGTT
65 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * * *
29140 AGATTAATATAGATTTTTCAAGAAGTCTTCT-TGCCAAAAACCATGCAACACTTATTCGAGGCCC
130 AGATGAATATAGATATTTCAAG-AGTCTT-TATGCCAAAAATCATGCAAAACTGAGTCGAGGCCC
* * * ** *
29204 TGAAACACTTTTTTAGCCAAAAATTGTGATGGTTAATACATGATTTCGGTTAAAAATTGACCCGA
193 CGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAAATTGACCCGA
* * * **
29269 AAATTTTTTTTCTTAATTTTTTGCCATAATACTCTGAAAAAATATAT-ATTCAATGCCAAAAGG
258 AAA--TTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
* *** * *
29332 ATTGGAGAAATTTTCACGCTTCTAATATCGTTTGTCCATTTTGTTCCGAATTAAATTCTAATTAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTT-TTCCGAATTAATTTCTAATTAA
* * * * * * * *
29397 ATTGAAGCAAGATTCAGATCCTCGTAAAAACAAATCGTTAAATCAAATATGGTTGGGATTTGGTT
65 ATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * *
29462 CGATGAATATAGATATTTCAATGAGTCTTTACGCCAAAAATCATGCAAAAGTGAG-CTGAGGCTC
130 AGATGAATATAGATATTTCAA-GAGTCTTTATGCCAAAAATCATGCAAAACTGAGTC-GAGGCCC
* ** * *
29526 CGGAACGCGTTTTTAGAGAAAAACCGTGATGG----TACACGATTTCGGCTAAAATTTTGCAAAC
193 CGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAA-ATTG-----
* * * * *
29587 ACTACCCCGAATAATTGTTCCTCAATTCTTTGCCACAATATACTCAGAAAAAACATATAATTCAA
252 ---A-CCCGAA-AATTTTTTCTTAATTTTTTGCCAC-A-ATACTCAGAAAAAATATATAATTCAA
29652 CGCCAAAAAA
310 CGCCAAAAAA
* * * *
29662 CTTGAAGGGTTTTTCACACTTCTAATATCGTTTTTCCA-TTTTTCCTGAATTTATTTCTAATTAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCC-GAATTAATTTCTAATTAA
*
29726 ATCGAAACAAGATTCAGATACTCGTAAAAACAAAAT-CTTAAATCCAATGTGGCTGAGATTTGGT
65 ATCGAAACAAGATTCAGATGCTCGTAAAAAC-AAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * * * * *
29790 TACATGAATATAAAAATTTTAAGGAGTTTTTCT-CCGTAAAATCATGCAAAACTTAGTCGGGGCC
129 TAGATGAATATAGATATTTCAA-GAGTCTTTATGCC-AAAAATCATGCAAAACTGAGTCGAGGCC
* * * *
29854 CCGAAACGCGTTTTTAGCAAAAAAAAAAAACCCTGATGGTTAGTGCATGATTTCGGCTAAAATTT
192 CCGAAACGCGTTTTTAGC------CAAAAACCGTGATGGTTAATACATGATTTCGGC--------
* * *
29919 TGCAAAAAATTGACCCGAAAAATTGTTCCTTAATTTTTTTGCCACAATACTCAGTAAAAATATAT
243 T---AAAAATTGACCCG-AAAATTTTTTCTTAA-TTTTTTGCCACAATACTCAGAAAAAATATAT
*
29984 AATTCAACGCCAAAAAT
303 AATTCAACGCCAAAAAA
* * * * *
30001 ATTGATGGGCTTTTCACGCTTCTAATATTG-TATTCCTATTTTTTTCCAAATTAATTTATAATTA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCC-A-TTTTTTCCGAATTAATTTCTAATTA
* * * * *
30065 AATTGAAACAATATTCAGATGCTCGTAAAAACAAAACTTTAAATCCAATGTGCCTGAGATTTGGT
64 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* * * * * *
30130 TCGATGAATATAGATATTTCAATGAGTTTTTACGCCAAAAAAATCATGCAAAATTGAGTCGTGAC
129 TAGATGAATATAGATATTTCAA-GAGTCTTTATGCC--AAAAATCATGCAAAACTGAGTCGAGGC
** * * * * * * * * *
30195 ATCGCAACGCATTTTCAGCCATAAACTGTGATGATTAATATACGATTTCGGCTAAAATTTTGTAA
191 CCCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAA-ATTG---
* * * *
30260 AAAACTAACCTGAAAAGTTTTTCCTCATTTTTTCCCACAATACTCAG-AAAAA-ATATAATTCAA
252 ---AC---CC-GAAAATTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAA
30323 CGCCAAAAATA
310 CGCCAAAAA-A
* * *
30334 ATTGAAGGGTTTTTCACGCTTCTAACATCGTTTTT-CATTTTTTCCCGAAATTAATTT-TAATAA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTT-CCG-AATTAATTTCTAATTA
** * *
30397 AATCGAATTAAGATTCATATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGAT
64 AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGT
* ** * * * *
30462 TACATGAATATAGATATTTCAAGGAGTCGATATGTCAAAAACCATGCAAAACTGAGCCGAGTCCC
129 TAGATGAATATAGATATTTCAA-GAGTCTTTATGCCAAAAATCATGCAAAACTGAGTCGAGGCCC
* * * * * ** *
30527 CGCAACACGATTTTAGCCAAAAACAGTGATCGTTGGTACATGATTTCGGCTAAAAACTTG-CACG
193 CGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAAA-TTGACCCG
* * **
30591 AATAATTTTTTCTCAATTTTTTGCGACAATACTCAGAAAAAATATATAATT-AGATACCAAAAAA
257 AA-AATTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA-ACGCCAAAAAA
** * * * * *
30655 ATTGATTGGCTTTTCACGCTTTTAATATCCTTTTTCCAATTAATTTCCAAATTAATTTCGAATTA
1 ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCC-ATT-TTTTCCGAATTAATTTCTAATTA
30720 AATCGAAACAA
64 AATCGAAACAA
30731 CACTATTTCG
Statistics
Matches: 2159, Mismatches: 391, Indels: 276
0.76 0.14 0.10
Matches are distributed among these distances:
313 11 0.01
314 47 0.02
315 51 0.02
316 46 0.02
317 6 0.00
318 35 0.02
319 6 0.00
320 97 0.04
321 69 0.03
322 314 0.15
323 208 0.10
324 85 0.04
325 12 0.01
326 96 0.04
327 147 0.07
328 20 0.01
329 205 0.09
330 168 0.08
331 25 0.01
332 142 0.07
333 41 0.02
334 22 0.01
335 25 0.01
336 25 0.01
338 5 0.00
339 74 0.03
340 111 0.05
341 22 0.01
342 36 0.02
347 1 0.00
349 3 0.00
350 4 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (319 bp):
ATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTCCGAATTAATTTCTAATTAAA
TCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTA
GATGAATATAGATATTTCAAGAGTCTTTATGCCAAAAATCATGCAAAACTGAGTCGAGGCCCCGA
AACGCGTTTTTAGCCAAAAACCGTGATGGTTAATACATGATTTCGGCTAAAAATTGACCCGAAAA
TTTTTTCTTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACGCCAAAAAA
Found at i:30707 original size:12 final size:11
Alignment explanation
Indices: 30687--30720 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
30677 TAATATCCTT
30687 TTTCCAATTAA
1 TTTCCAATTAA
30698 TTTCCAAATTAA
1 TTTCC-AATTAA
*
30710 TTTCGAATTAA
1 TTTCCAATTAA
30721 ATCGAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (11 bp):
TTTCCAATTAA
Found at i:32124 original size:330 final size:328
Alignment explanation
Indices: 30730--32826 Score: 1735
Period size: 330 Copynumber: 6.3 Consensus size: 328
30720 AATCGAAACA
* * * * *
30730 ACACTATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGA--TGTCCTCAATTTTTGGCTAAA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAA-TTTTGACTAAA
* ** * * * * * * *
30793 ATACTCATAAAAATATATAATTCGACATCAAAAATATTGAAGGGCATTTAACACTTATAATATTG
65 ATACTCATAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTCTAATATCG
* * * * *
30858 TTTTTC-ATATTTTTCAGAATTAATTTCTAATTAAATTGAAACCAGATTCAGATGGTTGTAAAAA
130 TTTTTCAATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * *
30922 CAAATCCTTAAATCCAATGTTGCTGAGATTTGGTTAAATGG-ATTTAGATATTTCAAGGAGTCTT
195 CAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGA-GGAATATAGATATTTCAAGGAGTCTT
* * * *
30986 GGCACCAAAAATCATGCAAAACTAAGCTGGGCCCCGGGACGCGTTTTTAGCCGAAAACCATGATG
259 GGCGCCAAAAATCATGCAAAACTAAGCCGGGCCCCGGAACGCGTTTTTAGCCAAAAACCATGAT-
*
31051 GTTATT
323 GTTAGT
* * * * *
31057 ACATGATTTTGGGTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAATTTCT-AGCGAA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTT-TGA-CTAA
* * ** * * *
31121 AATACTCATAAAAAATATATAACTCAATGGGAAAAAAATTGAAAGCCTTTTTCACGCTTCTAATA
64 AATACTCAT-AAAAATATATAATTCAACGCCAAAAAGATTGAAGGAC-TTTTCACGCTTCTAATA
* * * ** * * * *
31186 TCTTTTTTCCTATTTTATTTCCAAATTAATTTTTGATTAAATCGAAACAAGATTTAGATACTCGT
127 TCGTTTTT-CAATATT-TTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
* * * * *
31251 AAAAACAAATCCTTAAATACAATGTGACTGAGATTTGGTTAGATGCATATAGATATATTTTAAGG
190 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAG--ATATTTCAAGG
* * * * * * * *
31316 AGTCTTAGCGCAAAAAATCATGCAACACTGA-CTTGAGGCCCCGGAACGCGTTTGTAACAAAAAA
253 AGTCTTGGCGCCAAAAATCATGCAAAACTAAGC-CG-GGCCCCGGAACGCGTTTTTAGC--CAAA
* *
31380 AACCGTGATGGT--T
314 AACCATGATGTTAGT
* * * *
31393 A-ACGATTTCGGCTGAAATTTTGCAAAAATTGACCCGAAATATTCTT-CTCAATTTTTAGCTATA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTGA-CTAAA
* ** *
31456 ATACTCATTAAAAATATATAATTCAACACCAAAAAGATTGAACGG-CTTCCCACACTTCTAATAT
65 ATACTCA-TAAAAATATATAATTCAACGCCAAAAAGATTGAA-GGACTTTTCACGCTTCTAATAT
* * * * * * * * * *
31520 CATTTTCCAATTTTTTTTTTCAAATTAATGTT-GAATTAAATCGAAACATGA-TCTAAATGTTCA
128 CGTTTTTCAA-TATTTTTCT-GAATTAAT-TTCTAATTAAATCGAAACAAGATTC-AGATGCTCG
* * * ** *
31583 T-AAAA-AAATTCTTAAATCAAATGTGGCTAAGATTTGGTTAGATAAATATAGATATTTCAAAGA
189 TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGA
* * * * * * * * *
31646 GTTTTGCCACAAAAAAATCATGCAAAACTGACCCAAGGTCCCGGAACGCGTTTTTAGCCAAAAAA
254 GTCTTGGCGC-CAAAAATCATGCAAAACTAAGCC-GGGCCCCGGAACGCGTTTTTAGCCAAAAAC
* * * *
31711 AACTG-TGATGGC
317 CA-TGATGTTAGT
* * * ** * * *
31723 ATACGCTTTCGGCCAAAATTTTGCAAAAATTGACATGAAATA-TTTTCCTCAATTTTCAGCCACA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTGA-CTAAA
* * * * *
31787 GTACTCATAAAATATATATAACTCAACGCCAAAAAGATTGGAGGACTTTTCATGCTTTTAATATC
65 ATACTCATAAAA-ATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTCTAATATC
* * * *
31852 GTTTTTC-ATATTGTTCTGAATT-ATTGTCTAAGTAAATCGAAACAAGATTCAAATGCTCGTGAA
129 GTTTTTCAATATTTTTCTGAATTAATT-TCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* ** * *
31915 AATAAATCCTTAAATTTAATGTGGCTGAGATTTGATTAGAGGAATATATATATTTCAAGGAGTCT
193 AACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGAGTCT
* *
31980 CT-GCGCCAAAAATCATGCAAAACTAAGCCGGGACCCCGAAACGCGTTTTTAGCCAAAAACTATG
258 -TGGCGCCAAAAATCATGCAAAACTAAGCCGGG-CCCCGGAACGCGTTTTTAGCCAAAAACCATG
32044 ATGCTTAGT
321 ATG-TTAGT
* * * *
32053 ACACGATTTCAGTTAAAATTTTGCAAAAAATGACCCGAAAAATTTTTCCTCAATTTTGACTAAAA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTGACTAAAA
* * * * * *
32118 TACTCATAAAATATATATAATTTAACGCAAAAAAGAATGGATGACTTTTAACGCGTT-TAATATC
66 TACTCATAAAA-ATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGC-TTCTAATATC
* * * *
32182 GTTTTTC-ATATTTTTTTGAATTAATTCCTAATTAAATCGAAACAAGTTTTAGATGCTCGTAAAA
129 GTTTTTCAATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * * * * *
32246 ACAAATTCTTAAATCCAATGTGACCGAGATTTGATTAGATGAATATGGATATCTCAAAGAGTCTT
194 ACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGAGTCTT
* * * * * ** * *
32311 GGTGCCAACAGTCAAGCAAAACTTAGTTGGGGCCTCTGAACGCGTTTTTAGCCAAAAA-CA--AT
259 GGCGCCAAAAATCATGCAAAACTAAG-CCGGGCCCCGGAACGCGTTTTTAGCCAAAAACCATGAT
*
32373 G--ATT
323 GTTAGT
** * * * * * * *
32377 ACATTACTTCGGCAAAAATTTTTCAAAAATTGACCTGAAAGT-TATTTT-CTTAGTTTTTACTCA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAA-TAT-TTTTCCTCAATTTTGACT-A
* * * * *
32440 CAATACTCATAAAAATTATATCATTCAATGCCAAAAAGATTGAAGGCCTTTTCATGCTTCTAATA
63 AAATACTCATAAAAA-TATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTCTAATA
* *
32505 TCGTCTTTCCAATCA-TTTTCTGAATTAATTTCTAATTAAATCGAAACATA-ATTCAGATGCTTG
127 TCGT-TTTTCAAT-ATTTTTCTGAATTAATTTCTAATTAAATCGAAACA-AGATTCAGATGCTCG
*** * * *
32568 T-TTTACAAATACTTAAATCTAATGTGGCTGAGATTTGGTTAGATG-ATATAGATATTTCAAGGA
189 TAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGA
* * * * * *
32631 GTCTCGGTGCCAAAAATCATGCAACACTGAA-CCGGGGTCCCGAAACACGTTTTTAGCCAAAAAC
254 GTCTTGGCGCCAAAAATCATGCAAAACT-AAGCC-GGGCCCCGGAACGCGTTTTTAGCCAAAAAC
*
32695 C-TGATTTCGACTAACGT
317 CATGA--T-G--TTA-GT
* * * * *
32712 ACACGATTTCGACTAATATTTTGCAAAAATTGACCAGAAATATTTTTCCTCAATTTTTGTCGAAA
1 ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAA-TTTTGACTAAA
* * * *
32777 ATACTCATAAAATATATATAATTCAACTCCGAAAATATTGGAGGACTTTT
65 ATACTCATAAAA-ATATATAATTCAACGCCAAAAAGATTGAAGGACTTTT
32827 TAGCAAAAAA
Statistics
Matches: 1409, Mismatches: 288, Indels: 138
0.77 0.16 0.08
Matches are distributed among these distances:
324 47 0.03
325 120 0.09
326 43 0.03
327 88 0.06
328 45 0.03
329 101 0.07
330 373 0.26
331 184 0.13
332 11 0.01
333 60 0.04
334 138 0.10
335 122 0.09
336 46 0.03
337 19 0.01
338 2 0.00
339 10 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (328 bp):
ACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTGACTAAAA
TACTCATAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTCTAATATCGT
TTTTCAATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
AAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGAGGAATATAGATATTTCAAGGAGTCTTGG
CGCCAAAAATCATGCAAAACTAAGCCGGGCCCCGGAACGCGTTTTTAGCCAAAAACCATGATGTT
AGT
Found at i:33468 original size:331 final size:331
Alignment explanation
Indices: 32856--33470 Score: 846
Period size: 332 Copynumber: 1.9 Consensus size: 331
32846 TTAGTTAGTA
*
32856 CACGATTTCGGCTAACATTTTGCAGAAAATGTCCAGAAAAATTTTCCTCAATTTTTGGATAAAAT
1 CACGATTTCGGCTAACATTTTGCAGAAAATGACCAGAAAAATTTTCCTCAATTTTTGGATAAAAT
* * * * * * * *
32921 ACGCATGAAATATATATAATTTAACGTTAAAAAGTTTGGTGGACTTTTCACGCTTTTCATATTAT
66 ACGCATAAAAAATATATAATTCAACGTCAAAAAATTTGGTGGACTTTTCACGCTTCTAATATCAT
* *
32986 TTTTCATATTTTATCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATTCTTGTAAAAAT
131 TTTTCATATTTTATCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAT
* * * **
33051 AAATCCCCAAATGCAATGTGGCTGAGATTTGATTAGATGAATATGGAAATCTCAAGGAGTCCTGG
196 AAATCCCCAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGAAATCTCAAGGAATCCTAA
**
33116 TGCCAAAAATCATGCAAAACTGACCCGGGGTTCTGCAACGTGTTTTTAGCCGAAAACCGTGATTA
261 CACCAAAAATCATGCAAAACTGACCCGGGGTTCTGCAACGTGTTTTTAGCCGAAAACCGTGATTA
33181 TTATTT
326 TTATTT
*
33187 CACGATTTCGGCTAACATTTTGCA-AAAATTGACCTGAAAAATATTTCCTCAATTTTTGGCA-AA
1 CACGATTTCGGCTAACATTTTGCAGAAAA-TGACCAGAAAAAT-TTTCCTCAATTTTTGG-ATAA
* * * *
33250 AATACTCATAAAAAATATATAATTCAATG-CAAAAAATATTGAAGT-G-TTTTTTACGCTTCTAA
63 AATACGCATAAAAAATATATAATTCAACGTCAAAAAAT-TTG--GTGGACTTTTCACGCTTCTAA
* * *
33312 TATCATTTTTCCTATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGT
125 TATCATTTTTCATATTTTATCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
** * * *
33377 AAAAA-AAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTTAAGGAA
190 AAAAATAAATCCCCAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGAAATCTCAAGGAA
*
33441 TCTTAACACCAAAAATCATGCAAAACTGAC
255 TCCTAACACCAAAAATCATGCAAAACTGAC
33471 TAGGGGTGTC
Statistics
Matches: 246, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
330 4 0.02
331 117 0.48
332 121 0.49
333 2 0.01
334 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (331 bp):
CACGATTTCGGCTAACATTTTGCAGAAAATGACCAGAAAAATTTTCCTCAATTTTTGGATAAAAT
ACGCATAAAAAATATATAATTCAACGTCAAAAAATTTGGTGGACTTTTCACGCTTCTAATATCAT
TTTTCATATTTTATCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAT
AAATCCCCAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGAAATCTCAAGGAATCCTAA
CACCAAAAATCATGCAAAACTGACCCGGGGTTCTGCAACGTGTTTTTAGCCGAAAACCGTGATTA
TTATTT
Found at i:34293 original size:90 final size:89
Alignment explanation
Indices: 34128--34311 Score: 237
Period size: 90 Copynumber: 2.0 Consensus size: 89
34118 GATTTTATTA
* *
34128 GATGAATATAGATATTTCAAGGAGTCTCAGCGTCAAAAATCATGCAAAACTGAGCTGAGGCCCCG
1 GATGAATATAGATATTTCAAGGAATCTCAGAGTCAAAAATCATGCAAAACTGAGC-GAGGCCCCG
34193 AAACGCGTTTTTAGCCAAAAA-CCGT
65 AAACGCGTTTTTAG-CAAAAAGCCGT
* * * *
34218 GATGAATATAGATATTTCAAGTAATCTCAGAGTCAAAAGTCATGCAAAATTGAG-GCAGGTCCTC
1 GATGAATATAGATATTTCAAGGAATCTCAGAGTCAAAAATCATGCAAAACTGAGCG-AGG-CCCC
* * *
34282 GGAACGTGTTTTTAGTAAAAAGCCGT
64 GAAACGCGTTTTTAGCAAAAAGCCGT
34308 GATG
1 GATG
34312 TTTAGTTAGT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
88 1 0.01
89 8 0.10
90 73 0.89
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (89 bp):
GATGAATATAGATATTTCAAGGAATCTCAGAGTCAAAAATCATGCAAAACTGAGCGAGGCCCCGA
AACGCGTTTTTAGCAAAAAGCCGT
Found at i:36844 original size:195 final size:195
Alignment explanation
Indices: 36505--36867 Score: 663
Period size: 195 Copynumber: 1.9 Consensus size: 195
36495 TTTTTGTGGG
* * *
36505 TTTAAAAATAATAAATATGATTTATGAGGTTATAGAGTGATGGAATACGAATCGATTCAGTGTAA
1 TTTAAAAATAATAAATATGATCTATGAGGTTATAGAATGATAGAATACGAATCGATTCAGTGTAA
36570 CCGCATGTGAGAAATGACTAAAACGGGGCGATAAGGTCGCCCCAGGTTAAAAGTTAGAAGGAGCA
66 CCGCATGTGAGAAATGACTAAAACGGGGCGATAAGGTCGCCCCAGGTTAAAAGTTAGAAGGAGCA
36635 TTTAGCAATTTCACCTGGTTACAAAAATAATATGTAGAGTCAATTTTTATAGATTTTTTTTGCTC
131 TTTAGCAATTTCACCTGGTTACAAAAATAATATGTAGAGTCAATTTTTATAGATTTTTTTTGCTC
*
36700 TTTAAATATAATAAATATGATCTATGAGGTTATAGAATGATAGAATACGAATCGATTCAGTGTAA
1 TTTAAAAATAATAAATATGATCTATGAGGTTATAGAATGATAGAATACGAATCGATTCAGTGTAA
* *
36765 CCGCATGTGAGAAATGACTAAAACGGGGTGATAAGGTCGTCCCAGGTTAAAAGTTAGAAGGAGCA
66 CCGCATGTGAGAAATGACTAAAACGGGGCGATAAGGTCGCCCCAGGTTAAAAGTTAGAAGGAGCA
*
36830 TTTAGTAATTTCACCTGGTTACAAAAATAATATGTAGA
131 TTTAGCAATTTCACCTGGTTACAAAAATAATATGTAGA
36868 ATATATAATA
Statistics
Matches: 161, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
195 161 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (195 bp):
TTTAAAAATAATAAATATGATCTATGAGGTTATAGAATGATAGAATACGAATCGATTCAGTGTAA
CCGCATGTGAGAAATGACTAAAACGGGGCGATAAGGTCGCCCCAGGTTAAAAGTTAGAAGGAGCA
TTTAGCAATTTCACCTGGTTACAAAAATAATATGTAGAGTCAATTTTTATAGATTTTTTTTGCTC
Found at i:37216 original size:27 final size:27
Alignment explanation
Indices: 37181--37242 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
37171 CCTTTTTTTC
37181 AAAT-ATATTTGTAA-ATTGCCATTATT-
1 AAATAATATTT-TAATATT-CCATTATTA
*
37207 AAATAATATTTTAATTATTTCATTATTA
1 AAATAATATTTTAA-TATTCCATTATTA
37235 AAATAATA
1 AAATAATA
37243 AAAATTTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 7 0.23
27 13 0.42
28 11 0.35
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (27 bp):
AAATAATATTTTAATATTCCATTATTA
Found at i:38841 original size:29 final size:29
Alignment explanation
Indices: 38795--38853 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
38785 GTTTATTAAA
* * *
38795 ATTTCATAGTTAAGTTATCAAAGTTTCAT
1 ATTTCATAGGTAAATTATCAAAATTTCAT
38824 ATTTCATAGGTAAATTATCAAAATTTCAT
1 ATTTCATAGGTAAATTATCAAAATTTCAT
38853 A
1 A
38854 ACGTGGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (29 bp):
ATTTCATAGGTAAATTATCAAAATTTCAT
Found at i:38852 original size:22 final size:22
Alignment explanation
Indices: 38824--38898 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
38814 AAAGTTTCAT
*
38824 ATTTCAT-AGGTAAATTATCAAA
1 ATTTCATAAGGT-AGTTATCAAA
* *
38846 ATTTCATAACGTGGTTATCAAA
1 ATTTCATAAGGTAGTTATCAAA
*
38868 ATTTAATAAGGTAGTTATCAAA
1 ATTTCATAAGGTAGTTATCAAA
38890 ATTTCATAA
1 ATTTCATAA
38899 AAATATTCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 42 0.93
23 3 0.07
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (22 bp):
ATTTCATAAGGTAGTTATCAAA
Found at i:39294 original size:12 final size:11
Alignment explanation
Indices: 39277--39310 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
39267 TTCGTGATTC
39277 TATATAGTATAA
1 TATATA-TATAA
39289 TATATAATATAA
1 TATAT-ATATAA
39301 TATATATATA
1 TATATATATA
39311 TAAGATAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 15 0.71
13 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
TATATATATAA
Found at i:41516 original size:18 final size:18
Alignment explanation
Indices: 41481--41514 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41471 TCTTGGATGT
41481 TTGAGTTAGTTTAGTTTG
1 TTGAGTTAGTTTAGTTTG
41499 TTGAGTTAGTTT-GTTT
1 TTGAGTTAGTTTAGTTT
41515 TGAGTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (18 bp):
TTGAGTTAGTTTAGTTTG
Found at i:53265 original size:8 final size:8
Alignment explanation
Indices: 53252--53284 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
53242 GAAAGTAATA
53252 GCAAAGGT
1 GCAAAGGT
53260 GCAAAGGT
1 GCAAAGGT
53268 GCAAAGGT
1 GCAAAGGT
53276 GCAAAGGT
1 GCAAAGGT
53284 G
1 G
53285 AGTTGGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.39, T:0.12
Consensus pattern (8 bp):
GCAAAGGT
Found at i:54494 original size:2 final size:2
Alignment explanation
Indices: 54444--54482 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
54434 AGTATAGAAG
*
54444 AT AT AG AT AT AT AT 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 AT AT AT AT AT AT AT A
54483 GGGTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:54802 original size:22 final size:22
Alignment explanation
Indices: 54750--54854 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 22
54740 TGAATATTTT
* * *
54750 TATGAAATTTCGATAATCACCC
1 TATGAAATTTTGATAACCACCA
*
54772 TATTAAATTTTGATAACCACCA
1 TATGAAATTTTGATAACCACCA
* * **
54794 TATGCAATTTTTATAATTACC-
1 TATGAAATTTTGATAACCACCA
* * * *
54815 TATAAAATTATGATAAACTCCA
1 TATGAAATTTTGATAACCACCA
* * *
54837 TAAGAAACTTTAATAACC
1 TATGAAATTTTGATAACC
54855 TAACTATGAC
Statistics
Matches: 60, Mismatches: 22, Indels: 2
0.71 0.26 0.02
Matches are distributed among these distances:
21 14 0.23
22 46 0.77
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (22 bp):
TATGAAATTTTGATAACCACCA
Done.