Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008183.1 Hibiscus syriacus cultivar Beakdansim tig00110783_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: 2364390
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1990099 original size:14 final size:15
Alignment explanation
Indices: 1990069--1990101 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1990059 TATTATTTTT
1990069 ATTTATTAAGATAAA
1 ATTTATTAAGATAAA
*
1990084 ATTTATTAA-TTAAA
1 ATTTATTAAGATAAA
1990098 ATTT
1 ATTT
1990102 GAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTATTAAGATAAA
Found at i:1997374 original size:4 final size:4
Alignment explanation
Indices: 1997365--1997417 Score: 58
Period size: 4 Copynumber: 13.5 Consensus size: 4
1997355 ATGCTTGAAG
*
1997365 AAGA AAGA AA-A AAGA AAGAA AAGA AAGA AA-A TAGA AA-A AAGA AAGAA
1 AAGA AAGA AAGA AAGA AAG-A AAGA AAGA AAGA AAGA AAGA AAGA AAG-A
1997412 AAGA AA
1 AAGA AA
1997418 AAAATAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
3 8 0.19
4 26 0.62
5 8 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:1997385 original size:15 final size:15
Alignment explanation
Indices: 1997365--1997454 Score: 68
Period size: 14 Copynumber: 6.2 Consensus size: 15
1997355 ATGCTTGAAG
1997365 AAGAAAGAAAAAAGA
1 AAGAAAGAAAAAAGA
*
1997380 AAG-AA-AAGAAAGA
1 AAGAAAGAAAAAAGA
*
1997393 AA-ATAGAAAAAAGA
1 AAGAAAGAAAAAAGA
1997407 AAGAAAAGAAAAAA-A
1 AAG-AAAGAAAAAAGA
*
1997422 TAGAAA-ATGAAAAA-A
1 AAGAAAGA--AAAAAGA
1997437 AAGAGAAG-AAAAAGA
1 AAGA-AAGAAAAAAGA
1997452 AAG
1 AAG
1997455 GGGGTCAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
13 11 0.18
14 19 0.32
15 19 0.32
16 11 0.18
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAGAAAAAAGA
Found at i:1997388 original size:9 final size:9
Alignment explanation
Indices: 1997374--1997454 Score: 71
Period size: 9 Copynumber: 9.0 Consensus size: 9
1997364 GAAGAAAGAA
1997374 AAAAGAAAG
1 AAAAGAAAG
1997383 AAAAGAAAG
1 AAAAGAAAG
*
1997392 AAAATAGAA-
1 AAAAGA-AAG
1997401 AAAAGAAAG
1 AAAAGAAAG
1997410 AAAAG-AA-
1 AAAAGAAAG
*
1997417 AAAA-ATAG
1 AAAAGAAAG
*
1997425 AAAATGAAAA
1 AAAA-GAAAG
1997435 AAAAGAGAAG
1 AAAAGA-AAG
1997445 AAAAAGAAAG
1 -AAAAGAAAG
1997455 GGGGTCAAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
7 5 0.09
8 8 0.14
9 26 0.45
10 13 0.22
11 6 0.10
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:1997389 original size:16 final size:15
Alignment explanation
Indices: 1997365--1997454 Score: 80
Period size: 15 Copynumber: 5.9 Consensus size: 15
1997355 ATGCTTGAAG
*
1997365 AAGAAAGAAAAAAG-A
1 AAGAAA-AAGAAAGAA
1997380 AAG-AAAAGAAAGAAA
1 AAGAAAAAGAAAG-AA
1997395 ATAGAAAAAAGAAAGAA
1 A-AG-AAAAAGAAAGAA
1997412 AAGAAAAA-AATAGAA
1 AAGAAAAAGAA-AGAA
*
1997427 AATGAAAAA-AAAGAG
1 AA-GAAAAAGAAAGAA
1997442 AAGAAAAAGAAAG
1 AAGAAAAAGAAAG
1997455 GGGGTCAAGG
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
13 6 0.09
14 10 0.15
15 25 0.38
16 12 0.18
17 3 0.05
18 9 0.14
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAGAAAGAA
Found at i:1997421 original size:26 final size:27
Alignment explanation
Indices: 1997362--1997453 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
1997352 ATTATGCTTG
1997362 AAGAAGAA-AGAAAAAAGAAAGAAAAGA
1 AAGAA-AATAGAAAAAAGAAAGAAAAGA
1997389 AAGAAAATAGAAAAAAGAAAGAAAAGA
1 AAGAAAATAGAAAAAAGAAAGAAAAGA
* *
1997416 AA-AAAATAG-AAAATGAAAAAAAAGA
1 AAGAAAATAGAAAAAAGAAAGAAAAGA
1997441 GAAGAAAA-AGAAA
1 -AAGAAAATAGAAA
1997454 GGGGGTCAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
25 14 0.24
26 13 0.22
27 32 0.54
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.03
Consensus pattern (27 bp):
AAGAAAATAGAAAAAAGAAAGAAAAGA
Found at i:1997428 original size:7 final size:7
Alignment explanation
Indices: 1997362--1997420 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
1997352 ATTATGCTTG
*
1997362 AAGAAGA
1 AAGAAAA
1997369 AAGAAAA
1 AAGAAAA
*
1997376 AAGAAAG
1 AAGAAAA
*
1997383 AA-AAGA
1 AAGAAAA
1997389 AAGAAAA
1 AAGAAAA
*
1997396 TAGAAAA
1 AAGAAAA
1997403 AAGAAAGAA
1 AAG-AA-AA
1997412 AAGAAAA
1 AAGAAAA
1997419 AA
1 AA
1997421 ATAGAAAATG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
6 4 0.10
7 29 0.69
8 4 0.10
9 5 0.12
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:1998696 original size:83 final size:83
Alignment explanation
Indices: 1998490--1998949 Score: 782
Period size: 83 Copynumber: 5.6 Consensus size: 83
1998480 AATAGAACAA
* * *
1998490 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGACCTGGTT-TAGCAGAA-
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGA-CAGAAT
*
1998553 CAATCATTGAGTTTAGAAG
65 CAAGCATTGAGTTTAGAAG
1998572 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
* *
1998637 AAGCATTGAATTTGGAAG
66 AAGCATTGAGTTTAGAAG
*
1998655 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1998720 AAGCATTGAGTTTAGAAG
66 AAGCATTGAGTTTAGAAG
1998738 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
* *
1998803 AAGCATTGAATTTGGAAG
66 AAGCATTGAGTTTAGAAG
* *
1998821 ATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-C
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
*
1998885 AATCATTGAGTTTAGAAG
66 AAGCATTGAGTTTAGAAG
1998903 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1998950 GTTTGGTATG
Statistics
Matches: 358, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
82 120 0.34
83 238 0.66
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
AAGCATTGAGTTTAGAAG
Found at i:1999997 original size:113 final size:113
Alignment explanation
Indices: 1999794--2000578 Score: 1383
Period size: 113 Copynumber: 7.0 Consensus size: 113
1999784 CAAAGATTCA
* ** *
1999794 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1999859 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
1999907 AATCCATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1999972 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
2000020 AATCCATCATTTGAGGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2000085 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
2000133 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2000198 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
2000246 AATCCATCATTTGAGAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2000311 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
2000359 AATCCATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
2000424 AGGAAGAAGAAGTTCATAATTAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * * *
2000472 AATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * * *
2000536 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
2000579 GCATAACTCT
Statistics
Matches: 649, Mismatches: 23, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
112 70 0.11
113 579 0.89
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:2000905 original size:3 final size:3
Alignment explanation
Indices: 2000897--2001003 Score: 178
Period size: 3 Copynumber: 35.7 Consensus size: 3
2000887 TTTTTATCCA
* *
2000897 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
2000945 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2000993 TAT TAT TAT TA
1 TAT TAT TAT TA
2001004 AATATATATT
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:2006418 original size:31 final size:31
Alignment explanation
Indices: 2006351--2006410 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
2006341 CAATTTAAGG
*
2006351 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTAGACTTGAATTGAATTTA
2006382 CAAAAT-GTTTTTAGACTT-AATTGAATTTA
1 CAAAATGGTTTTTAGACTTGAATTGAATTTA
2006411 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTAGACTTGAATTGAATTTA
Found at i:2006502 original size:19 final size:19
Alignment explanation
Indices: 2006475--2006541 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
2006465 AATGTTTTTA
* *
2006475 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
2006494 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
2006513 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
2006532 TGAACAGTAA
1 TGAACAGTAA
2006542 CCCGAGGCTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:2006673 original size:21 final size:21
Alignment explanation
Indices: 2006647--2006688 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2006637 ATTTGAATAT
*
2006647 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2006668 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2006689 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:2006755 original size:20 final size:22
Alignment explanation
Indices: 2006717--2006756 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
2006707 TTTGAGTATA
2006717 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
2006739 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
2006757 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:2007010 original size:34 final size:32
Alignment explanation
Indices: 2006971--2007040 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 32
2006961 TTTTGTAAAG
*
2006971 GGGAAAGGTTCTAGC-TTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTA-CTTTAGCCCG-G-AAAAACTA
2007005 GGGAAAGGTTCTACTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTACTTTAGCCCGGAAAAACTA
2007037 GGGA
1 GGGA
2007041 GTTTGTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.32
33 2 0.06
34 21 0.62
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTACTTTAGCCCGGAAAAACTA
Found at i:2013458 original size:20 final size:20
Alignment explanation
Indices: 2013429--2013467 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2013419 AAAGCTCATA
*
2013429 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
2013449 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
2013468 GTGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:2014236 original size:23 final size:21
Alignment explanation
Indices: 2014210--2014253 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
2014200 GGATTTCACT
2014210 ATGGATGCTTAAGTTTTTCTTTA
1 ATGGATGCTT-A-TTTTTCTTTA
*
2014233 ATGGATGGTTATTTTTCTTTA
1 ATGGATGCTTATTTTTCTTTA
2014254 TGTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (21 bp):
ATGGATGCTTATTTTTCTTTA
Found at i:2016091 original size:11 final size:11
Alignment explanation
Indices: 2016075--2016099 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2016065 ATATGATAAC
2016075 ATGAGTAAGGA
1 ATGAGTAAGGA
2016086 ATGAGTAAGGA
1 ATGAGTAAGGA
2016097 ATG
1 ATG
2016100 TGAGTTCATA
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:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (11 bp):
ATGAGTAAGGA
Found at i:2017356 original size:28 final size:28
Alignment explanation
Indices: 2017297--2017393 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 28
2017287 GTAGGATAAA
* * * *
2017297 ATATTAAACATTTTAAAAATATATATACC
1 ATATT-AATATTTTAAAAATAAAAATATC
* * * * *
2017326 ATATTAATTTTTTTAAGATATAATTATC
1 ATATTAATATTTTAAAAATAAAAATATC
2017354 ATATTGAATATTTTAAAAATAAAAATATC
1 ATATT-AATATTTTAAAAATAAAAATATC
2017383 ATATTAATATT
1 ATATTAATATT
2017394 AATATTTGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 27 0.49
29 28 0.51
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (28 bp):
ATATTAATATTTTAAAAATAAAAATATC
Found at i:2025181 original size:2 final size:2
Alignment explanation
Indices: 2025174--2025213 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2025164 GATCTTATCC
2025174 AT AT AT AT 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 AT
2025214 GAGTTATGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2025953 original size:27 final size:27
Alignment explanation
Indices: 2025919--2025974 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
2025909 ATACATAAGA
2025919 TTATACTGTATGATTAAACAGACATTC
1 TTATACTGTATGATTAAACAGACATTC
*
2025946 TTATACTGTATGATTGAACAGACATTC
1 TTATACTGTATGATTAAACAGACATTC
2025973 TT
1 TT
2025975 CATCAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (27 bp):
TTATACTGTATGATTAAACAGACATTC
Found at i:2027770 original size:12 final size:12
Alignment explanation
Indices: 2027753--2027778 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2027743 GATATTAAAG
2027753 TTCTTTTTTTTT
1 TTCTTTTTTTTT
2027765 TTCTTTTTTTTT
1 TTCTTTTTTTTT
2027777 TT
1 TT
2027779 GAGATGTTTC
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:2036088 original size:23 final size:23
Alignment explanation
Indices: 2036023--2036088 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
2036013 CACCACAGCT
* * *
2036023 CGTATAAATGCACCTAAGTGCCA
1 CGTAGAAATGCACCAAAGTGACA
* * ** *
2036046 CATAGAATTGCACCGTAGTGATA
1 CGTAGAAATGCACCAAAGTGACA
2036069 CGTAGAAATGCACCAAAGTG
1 CGTAGAAATGCACCAAAGTG
2036089 CCCTATAAGA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
CGTAGAAATGCACCAAAGTGACA
Found at i:2036207 original size:20 final size:20
Alignment explanation
Indices: 2036184--2036236 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2036174 GACCTCACAC
*
2036184 ATGTTCCAAAGAATACATAT
1 ATGTCCCAAAGAATACATAT
2036204 ATGTCCCAAAGAATACATAT
1 ATGTCCCAAAGAATACATAT
2036224 ATGTCCCAAAGAA
1 ATGTCCCAAAGAA
2036237 CCGCGTAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (20 bp):
ATGTCCCAAAGAATACATAT
Found at i:2036572 original size:2 final size:2
Alignment explanation
Indices: 2036567--2036591 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2036557 CATATATGTG
2036567 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2036592 TATCATGTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2042188 original size:23 final size:23
Alignment explanation
Indices: 2042158--2042203 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2042148 CTCTTATCGT
2042158 TAAAAACTTAATAGAATTACTAA
1 TAAAAACTTAATAGAATTACTAA
2042181 TAAAAACTTAATAGAATTACTAA
1 TAAAAACTTAATAGAATTACTAA
2042204 CGTGATGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (23 bp):
TAAAAACTTAATAGAATTACTAA
Found at i:2042655 original size:32 final size:33
Alignment explanation
Indices: 2042584--2042656 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
2042574 AACTTAAAAG
*
2042584 GGGTTAAATATAATTAATTATAAAATATGATGA
1 GGGTAAAATATAATTAATTATAAAATATGATGA
* *
2042617 -GATAAAATATAATTATTTATAGAAA-ATGA-GA
1 GGGTAAAATATAATTAATTATA-AAATATGATGA
2042648 GGGTAAAAT
1 GGGTAAAAT
2042657 TAAAATAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
31 2 0.06
32 29 0.85
33 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (33 bp):
GGGTAAAATATAATTAATTATAAAATATGATGA
Found at i:2044650 original size:25 final size:28
Alignment explanation
Indices: 2044594--2044652 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
2044584 TATTTAATAA
2044594 TTTTAAATTAATATAAATTCTTTTTACTT
1 TTTTAAATTAATATAAATTCTTTTTAC-T
2044623 TTTTAAA-TAA-A-AAATTCTTTTTTA-T
1 TTTTAAATTAATATAAATTC-TTTTTACT
2044648 TTTTA
1 TTTTA
2044653 TATCGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 7 0.24
28 3 0.10
29 7 0.24
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTAAATTAATATAAATTCTTTTTACT
Found at i:2045957 original size:73 final size:73
Alignment explanation
Indices: 2045838--2045983 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
2045828 TTGTTAATCG
*
2045838 CTAGCGATCTATCATAACTCTTTGTATTCTTCTTTTGATGAGGATGGGTTAATCGAACTTTTTCA
1 CTAGCGATCTATCATAACTCTTTGTATTCTTCTTTTCATGAGGATGGGTTAATCGAACTTTTTCA
2045903 TTTGATAA
66 TTTGATAA
*
2045911 CTAGCGATCTATCATAACTCTTTGTATTCTTCTTTTCATGAGGATGGGTTAATCGGACTTTTTCA
1 CTAGCGATCTATCATAACTCTTTGTATTCTTCTTTTCATGAGGATGGGTTAATCGAACTTTTTCA
2045976 TTTGATAA
66 TTTGATAA
2045984 TATTTGCAGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (73 bp):
CTAGCGATCTATCATAACTCTTTGTATTCTTCTTTTCATGAGGATGGGTTAATCGAACTTTTTCA
TTTGATAA
Found at i:2049325 original size:5 final size:5
Alignment explanation
Indices: 2049315--2049340 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2049305 GAAATCAAAC
2049315 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
2049341 ATCCAAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:2052731 original size:2 final size:2
Alignment explanation
Indices: 2052724--2052749 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2052714 TCGCCATTCC
2052724 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
2052750 TAATTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2057460 original size:22 final size:21
Alignment explanation
Indices: 2057408--2057461 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
2057398 ATGTTTAAAG
*
2057408 GGTATCGATA-TCATCCTTAA
1 GGTATCGATACCCATCCTTAA
* *
2057428 GGTACCAATACCCATCCCTTAA
1 GGTATCGATACCCAT-CCTTAA
2057450 GGTATCGATACC
1 GGTATCGATACC
2057462 ACTCTCATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 16 0.59
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
GGTATCGATACCCATCCTTAA
Found at i:2058024 original size:12 final size:12
Alignment explanation
Indices: 2058007--2058039 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2057997 AGTCCACGGT
2058007 AAGAGGAAGAAG
1 AAGAGGAAGAAG
2058019 AAGAGGAAGAAG
1 AAGAGGAAGAAG
2058031 AAGA-GAAGA
1 AAGAGGAAGA
2058040 GAAAGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (12 bp):
AAGAGGAAGAAG
Found at i:2062829 original size:23 final size:24
Alignment explanation
Indices: 2062780--2062842 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
2062770 AAATTTTCAT
* **
2062780 GAACATGTTCGTTTATGTGTTCGC
1 GAACATGTTCATTTATGCATTCGC
2062804 GAACATGTTCATTTA-GCATTCGC
1 GAACATGTTCATTTATGCATTCGC
2062827 GAACATATGTTCATTT
1 GAAC--ATGTTCATTT
2062843 GCAAGTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.29
24 14 0.41
25 10 0.29
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
GAACATGTTCATTTATGCATTCGC
Found at i:2075077 original size:21 final size:21
Alignment explanation
Indices: 2075051--2075095 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2075041 GATTTCTGGG
* *
2075051 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2075072 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2075093 CAA
1 CAA
2075096 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2075809 original size:31 final size:31
Alignment explanation
Indices: 2075771--2075924 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
2075761 GGGTCGAGGG
2075771 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2075802 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2075833 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2075864 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
2075895 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
2075925 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:2079628 original size:21 final size:21
Alignment explanation
Indices: 2079602--2079646 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2079592 GATTTCTAGG
* *
2079602 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2079623 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2079644 CAA
1 CAA
2079647 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2080360 original size:31 final size:31
Alignment explanation
Indices: 2080322--2080506 Score: 327
Period size: 31 Copynumber: 6.0 Consensus size: 31
2080312 GGGTCGAGGG
2080322 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2080353 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
2080384 TTACCTATGTTCTTCGGGACATATAGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2080415 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2080446 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
2080477 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
2080507 GTCCTTCGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:2085507 original size:23 final size:23
Alignment explanation
Indices: 2085477--2085520 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2085467 AACTAGCTAT
2085477 TTCTCTCTTAATTCT-TTCTAAAA
1 TTCTCTC-TAATTCTCTTCTAAAA
*
2085500 TTCTCTCTATTTCTCTTCTAA
1 TTCTCTCTAATTCTCTTCTAA
2085521 TCGACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (23 bp):
TTCTCTCTAATTCTCTTCTAAAA
Found at i:2085819 original size:20 final size:20
Alignment explanation
Indices: 2085796--2085834 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2085786 TTTTAAATCG
2085796 GTCTTTAAACTTTTGAATAA
1 GTCTTTAAACTTTTGAATAA
2085816 GTCTTTAAACTTTTGAATA
1 GTCTTTAAACTTTTGAATA
2085835 TTTCAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
GTCTTTAAACTTTTGAATAA
Found at i:2086191 original size:60 final size:60
Alignment explanation
Indices: 2086090--2086239 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 60
2086080 CATATAATTT
* * ** * * *
2086090 GGGATAAAATTGGAATGTTCAAAAAGTTTGCGGACTGATTTAGAATGA-AGGTCATAGTTTG
1 GGGATAAAATTGAAATATTC-AAAAGTTTAAGGAATAATTTAGAATGATA-GTCATAGTTTA
* *
2086151 GGGATGAAATTGAAATATTCAAAAGTTTAAGGAATAATTTAGAATGATAGTCATGGTTTA
1 GGGATAAAATTGAAATATTCAAAAGTTTAAGGAATAATTTAGAATGATAGTCATAGTTTA
* * * *
2086211 AGGATAAAATTAAAACATTTAAAAGTTTA
1 GGGATAAAATTGAAATATTCAAAAGTTTA
2086240 GAGACTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
60 56 0.76
61 18 0.24
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (60 bp):
GGGATAAAATTGAAATATTCAAAAGTTTAAGGAATAATTTAGAATGATAGTCATAGTTTA
Found at i:2094749 original size:51 final size:51
Alignment explanation
Indices: 2094693--2094794 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
2094683 AGAAAAAGAG
2094693 AAAGAATACTTTGAAGAAGATAATACTCATTTGATCCCCTACCAATTACAA
1 AAAGAATACTTTGAAGAAGATAATACTCATTTGATCCCCTACCAATTACAA
*
2094744 AAAGAATACTTTGAAGAAGATAATACTCATTTGGTCCCCTACCAATTACAA
1 AAAGAATACTTTGAAGAAGATAATACTCATTTGATCCCCTACCAATTACAA
2094795 TCATGAGATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (51 bp):
AAAGAATACTTTGAAGAAGATAATACTCATTTGATCCCCTACCAATTACAA
Found at i:2106688 original size:23 final size:23
Alignment explanation
Indices: 2106657--2106897 Score: 194
Period size: 23 Copynumber: 10.7 Consensus size: 23
2106647 AAAGGTAAAA
*
2106657 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2106680 ATATAATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
2106703 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2106726 ATATAATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
2106749 ATATAA--TAA-A-ATAG-G-TT
1 ATATAATGTAATAGGTAGCGCTT
* * ** * **
2106766 A-ATTACTGGAA-ACATTATCAAGCAC
1 ATA-TAATGTAATA-GGTAGC--GCTT
** * *
2106791 A-ATAACATATTAGGTACCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
2106813 ATATAATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2106836 ATATAATGTAATAGGTAACACTT
1 ATATAATGTAATAGGTAGCGCTT
*
2106859 ATATAATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
**
2106882 ATATAATAAAATAGGT
1 ATATAATGTAATAGGT
2106898 TAATTACTGA
Statistics
Matches: 173, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
16 1 0.01
17 5 0.03
19 6 0.03
20 1 0.01
21 5 0.03
22 3 0.02
23 142 0.82
24 7 0.04
25 3 0.02
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.34
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2106814 original size:64 final size:63
Alignment explanation
Indices: 2106740--2106961 Score: 180
Period size: 64 Copynumber: 3.4 Consensus size: 63
2106730 AATGTAATAG
* * *
2106740 GTAGCACTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAG
1 GTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAA-CACAATAACATATTAA
* ** ** * * * *
2106804 GTACCGCTTATATAATGTAATAGG-T-ATCGCTTATATA-ATGTAATAGGTAACACTTATATAAT
1 GTAGCGCTTATATAATAAAATAGGTTAATTACTGA-AAACAT-T-AT---CAACAC--A-ATAAC
* *
2106866 GTAATAA
57 ATATTAA
2106873 GTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACATATTAA
1 GTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATTATC-AACACAATAACATATTAA
**
2106937 GTAGCGCTTATATAATGTAATAGGT
1 GTAGCGCTTATATAATAAAATAGGT
2106962 AGCGCTTATA
Statistics
Matches: 118, Mismatches: 27, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
62 6 0.05
63 4 0.03
64 54 0.46
65 1 0.01
66 3 0.03
67 7 0.06
68 1 0.01
69 31 0.26
70 4 0.03
71 7 0.06
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (63 bp):
GTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAACACAATAACATATTAA
Found at i:2106906 original size:133 final size:133
Alignment explanation
Indices: 2106668--2106984 Score: 526
Period size: 133 Copynumber: 2.4 Consensus size: 133
2106658 TATGATGTAA
* * *
2106668 TAGGTAGCGCTTATATAATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAAT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACACTTATATAAT
* * *
2106733 GTAATAGGTAGCACTTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCACAATAACA
66 GTAATAAGTAGCACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACA
2106798 TAT
131 TAT
* *
2106801 TAGGTACCGCTTATATAATGTAATAGGTATCGCTTATATAATGTAATAGGTAACACTTATATAAT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACACTTATATAAT
*
2106866 GTAATAAGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACA
66 GTAATAAGTAGCACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACA
2106931 TAT
131 TAT
* **
2106934 TAAGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGT
1 TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGT
2106985 TAATTACTGA
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 170 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (133 bp):
TAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATGTAATAGGTAACACTTATATAAT
GTAATAAGTAGCACTTATATAATAAAATAGGTTAATTACTGAAAACATTATCAAACACAATAACA
TAT
Found at i:2106951 original size:23 final size:23
Alignment explanation
Indices: 2106925--2106974 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
2106915 ATCAAACACA
*
2106925 ATAACATATTAAGTAGCGCTTAT
1 ATAACATAATAAGTAGCGCTTAT
** *
2106948 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAAGTAGCGCTTAT
2106971 ATAA
1 ATAA
2106975 TAAAATAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAAGTAGCGCTTAT
Found at i:2106975 original size:23 final size:23
Alignment explanation
Indices: 2106937--2106984 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2106927 AACATATTAA
**
2106937 GTAGCGCTTATATAATGTAATAG
1 GTAGCGCTTATATAATAAAATAG
2106960 GTAGCGCTTATATAATAAAATAG
1 GTAGCGCTTATATAATAAAATAG
2106983 GT
1 GT
2106985 TAATTACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
GTAGCGCTTATATAATAAAATAG
Found at i:2107002 original size:87 final size:87
Alignment explanation
Indices: 2106850--2107077 Score: 393
Period size: 87 Copynumber: 2.6 Consensus size: 87
2106840 AATGTAATAG
* *
2106850 GTAACACTTATATAATGTAATAAGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATT
1 GTAACCCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATT
2106915 ATCAAACACAATAACATATTAA
66 ATCAAACACAATAACATATTAA
* *
2106937 GTAGCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATT
1 GTAACCCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATT
* *
2107002 ATCAAGCACAATAACATATTAG
66 ATCAAACACAATAACATATTAA
*
2107024 GTAACCCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTA
1 GTAACCCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTA
2107078 TTTAATTTTT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 133 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (87 bp):
GTAACCCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAACATT
ATCAAACACAATAACATATTAA
Found at i:2107038 original size:23 final size:23
Alignment explanation
Indices: 2107012--2107071 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2107002 ATCAAGCACA
*
2107012 ATAACATATTAGGTAACCCTTAT
1 ATAACATAATAGGTAACCCTTAT
* * *
2107035 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACCCTTAT
* *
2107058 ATAATAAAATAGGT
1 ATAACATAATAGGT
2107072 TAATTATTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAACCCTTAT
Found at i:2107434 original size:28 final size:28
Alignment explanation
Indices: 2107399--2107488 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 28
2107389 TATTTATGTC
2107399 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
2107427 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
* ** *
2107455 TATATT-TTATTAAAATAAAATTATTAT
1 AATATTATTATTAAAATATTATGATTAT
2107482 AA-ATTAT
1 AATATTAT
2107489 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.06
27 17 0.36
28 25 0.53
29 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:2107462 original size:30 final size:31
Alignment explanation
Indices: 2107428--2107493 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
2107418 TATATCTATA
*
2107428 ATTTTA-TAAATAAAAAATTATGAT-TATTAT
1 ATTTTATTAAA-AAAAAATTATGATAAATTAT
* *
2107458 ATTTTATTAAAATAAAATTATTATAAATTAT
1 ATTTTATTAAAAAAAAATTATGATAAATTAT
2107489 ATTTT
1 ATTTT
2107494 TATTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTTTATTAAAAAAAAATTATGATAAATTAT
Found at i:2108059 original size:30 final size:29
Alignment explanation
Indices: 2108025--2108104 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 29
2108015 ATATATATAT
2108025 ATAATTACAATATAATTTTAAAAAATAATC
1 ATAATTACAATATAA-TTTAAAAAATAATC
* * *
2108055 ATAA-T-GAAT-TGA--TGAAAAATAATC
1 ATAATTACAATATAATTTAAAAAATAATC
2108079 ATAATTACAATATAATTATAAAAAAT
1 ATAATTACAATATAATT-TAAAAAAT
2108105 CAAATACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
24 15 0.39
25 1 0.03
26 3 0.08
27 4 0.11
28 3 0.08
29 1 0.03
30 11 0.29
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (29 bp):
ATAATTACAATATAATTTAAAAAATAATC
Found at i:2108262 original size:31 final size:32
Alignment explanation
Indices: 2108205--2108268 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 32
2108195 TATTATTATT
*
2108205 AAAATATTATATCTATAATTTTTT-AAATAAA
1 AAAATATGATATCTATAATTTTTTAAAATAAA
2108236 AAAATATGATTAT-TAT-ATTTTATTAAAATAAA
1 AAAATATGA-TATCTATAATTTT-TTAAAATAAA
2108268 A
1 A
2108269 TTATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 5 0.17
31 13 0.45
32 11 0.38
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
AAAATATGATATCTATAATTTTTTAAAATAAA
Found at i:2108840 original size:30 final size:29
Alignment explanation
Indices: 2108806--2108881 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 29
2108796 ATATATATAT
2108806 ATAATTACAATATAATTTTAAAAAATAATC
1 ATAATTACAATATAA-TTTAAAAAATAATC
* * *
2108836 ATAA-T-GAA-ATGA--TGAAAAATAATC
1 ATAATTACAATATAATTTAAAAAATAATC
2108860 ATAATTACAATATAATTATAAA
1 ATAATTACAATATAATT-TAAA
2108882 CATCAAATAC
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
24 15 0.44
25 1 0.03
26 2 0.06
27 6 0.18
28 2 0.06
29 1 0.03
30 7 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (29 bp):
ATAATTACAATATAATTTAAAAAATAATC
Found at i:2108968 original size:790 final size:785
Alignment explanation
Indices: 2107302--2109171 Score: 3270
Period size: 790 Copynumber: 2.4 Consensus size: 785
2107292 TAATAGTGCC
* *
2107302 TATAAACATCAAATACAATAAAACAATATTATTTATTAACAAAATAATATTTTTATTTTTAAAAT
1 TATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATATTATTATTTTTAAAAT
2107367 ATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTT
66 ATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTT
2107432 TATAAATAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTAT
131 TATAAATAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATA---TT-T
*
2107497 TTTATTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGATAATAGTTAAACATA
192 TTTATTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATA
2107562 TGTGTCGATACATTTTCTAAAAGTATCAACACATATGTTATAATTATAATGTAATAGGTAAATTT
257 TGTGTCGATACATTTTCTAAAAGTATCAACACATATGTTATAATTATAATGTAATAGGTAAATTT
2107627 ACAATGTAACTAGTATACAACAATAACAAAACAAGTAAAAATTACCGAAAACATCATTATTTTAA
322 ACAATGTAACTAGTATACAACAATAACAAAACAAGTAAAAATTACCGAAAACATCATTATTTTAA
*
2107692 CAAAAAATGTAAAACGCTAGCGGTTTTGTTATTTTTTTACCGGTTTTGTTATTGTTGGGCATTTT
387 CAAAAAATGTAAAACGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTTATTGTTGGGCATTTT
* *
2107757 ACTGAAAATATTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTCATTTTTACC
452 ACCGAAAATATTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACC
2107822 GGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACCTTTTAATGATAAAATTAGTAA
517 GGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACCTTTTAATGATAAAATTAGTAA
2107887 ACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATGGAA
582 ACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATGGAA
2107952 AAAAAGGACACAGTATTTCTATTTAGATATTAACTTTCAAATAAAAAATAAAAATACATATATAT
647 AAAAAGGACACAGTATTTCTATTTAGATATTAACTTTCAAAT---AAATAAAAATA-ATATATAT
*
2108017 ATATATATATAATTACAATATAATTTTAAAAAATAATCATAATGAATTGATGAAAAATAATCATA
708 ATATATATATAATTACAATATAATTTTAAAAAATAATCATAATGAAATGATGAAAAATAATCATA
2108082 ATTACAATATAAT
773 ATTACAATATAAT
*
2108095 TATAAAAAATCAAATACAATAAAATAATATTATTTATTAACAAAATAATATTATTATTTTTAAAA
1 TAT-AAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATATTATTATTTTTAAAA
*
2108160 TATTACAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATT
65 TATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATT
* *
2108225 TTTTAAATAAAAAAATATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTT
130 TTATAAATAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTT
2108290 ATTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGT
195 ATTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGT
2108355 GTCGATACATTTTCTAAAAGTATCAACACGA-ATGTTATAATTATAATGTAATAGGTAAATTTAC
260 GTCGATACATTTTCTAAAAGTATCAACAC-ATATGTTATAATTATAATGTAATAGGTAAATTTAC
* *
2108419 AATGTAACTTGTATACAACAATAACAAAACAGGTAAAAATTACCGAAAACATCATTATTTT-A-A
324 AATGTAACTAGTATACAACAATAACAAAACAAGTAAAAATTACCGAAAACATCATTATTTTAACA
* * ** *
2108482 TAAACTGGTAAAGTGCTACCGGTTTTGTTATTTTTTTTACTGGTTTTGTTATTGTTGGGCATTTT
389 AAAAAT-GTAAAACGCTACCGGTTTTGTTA-TTTTTTTACCGGTTTTGTTATTGTTGGGCATTTT
* *
2108547 ACCGAAAATGTTAAAAAGCATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACC
452 ACCGAAAATATTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACC
*
2108612 GGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACTTTTTAATGATAAAATTAGTAA
517 GGTTTTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACCTTTTAATGATAAAATTAGTAA
2108677 ACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAAT-GAA
582 ACACAAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATGGAA
* *
2108741 AAAAAGGACACGGTATTTCTATTTCGATATTAACTTTCAAAT-AAT-AAAAT-A-ATATATATAT
647 AAAAAGGACACAGTATTTCTATTTAGATATTAACTTTCAAATAAATAAAAATAATATATATATAT
2108802 ATATATAATTACAATATAATTTTAAAAAATAATCATAATGAAATGATGAAAAATAATCATAATTA
712 ATATATAATTACAATATAATTTTAAAAAATAATCATAATGAAATGATGAAAAATAATCATAATTA
2108867 CAATATAAT
777 CAATATAAT
* *
2108876 TATAAACATCAAATACAATAAAATAATATTATTTATTAACAGAATAATAATATTATTTTTAAAAT
1 TATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATATTATTATTTTTAAAAT
* *
2108941 ATTAGAATAATTTATTTAATATTATTTATGTTAATATTATTATTAAAATAGTATATCTATAATTT
66 ATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTT
* *
2109006 TATAAATAAAAAATTATGATTATTATATTTTATTAAATTAAAATTATTATAAATTATATTTATTA
131 TATAAATAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTTA
* **
2109071 TTTATTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAACTAAACATATGTG
196 TTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTG
* *
2109136 TCTATACATTTTCTAAAAGTATCGACACATATGTTA
261 TCGATACATTTTCTAAAAGTATCAACACATATGTTA
2109172 CATCGAAACC
Statistics
Matches: 1034, Mismatches: 38, Indels: 23
0.94 0.03 0.02
Matches are distributed among these distances:
779 1 0.00
780 276 0.27
781 86 0.08
782 1 0.00
784 5 0.00
785 3 0.00
788 5 0.00
789 64 0.06
790 408 0.39
791 3 0.00
793 3 0.00
794 179 0.17
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (785 bp):
TATAAACATCAAATACAATAAAATAATATTATTTATTAACAAAATAATATTATTATTTTTAAAAT
ATTAGAATAATTTATTTAATATTATTTATGTCAATATTATTATTAAAATATTATATCTATAATTT
TATAAATAAAAAATTATGATTATTATATTTTATTAAAATAAAATTATTATAAATTATATTTTTTA
TTTTTTATAATAAGAATAATATATCATTAATTATATTATAATGAGAGAATAGTTAAACATATGTG
TCGATACATTTTCTAAAAGTATCAACACATATGTTATAATTATAATGTAATAGGTAAATTTACAA
TGTAACTAGTATACAACAATAACAAAACAAGTAAAAATTACCGAAAACATCATTATTTTAACAAA
AAATGTAAAACGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTTATTGTTGGGCATTTTACCG
AAAATATTAAAAAACATTGATGTTTTAGGTAGAAATAATAATGTTTTAGGTAATTTTTACCGGTT
TTGTTATGCCCAACAATAACAAAACCGGTAAAAATAGACCTTTTAATGATAAAATTAGTAAACAC
AAATTATACAAATTAATTTTAATTTTTTAGTTTGTAAGTTGCCACAATATAACTAATGGAAAAAA
AGGACACAGTATTTCTATTTAGATATTAACTTTCAAATAAATAAAAATAATATATATATATATAT
ATAATTACAATATAATTTTAAAAAATAATCATAATGAAATGATGAAAAATAATCATAATTACAAT
ATAAT
Found at i:2108976 original size:15 final size:14
Alignment explanation
Indices: 2108950--2108981 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
2108940 TATTAGAATA
2108950 ATTTATTTAATATT
1 ATTTATTTAATATT
2108964 ATTTATGTTAATATT
1 ATTTAT-TTAATATT
2108979 ATT
1 ATT
2108982 ATTAAAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
ATTTATTTAATATT
Found at i:2109003 original size:28 final size:28
Alignment explanation
Indices: 2108972--2109042 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 28
2108962 TTATTTATGT
*
2108972 TAATATTATTATTAAAATAGTAT-ATCTA
1 TAATATTATTATTAAAAAAGTATGAT-TA
* * * *
2109000 TAATTTTATAAATAAAAAATTATGATTA
1 TAATATTATTATTAAAAAAGTATGATTA
*
2109028 TTATATT-TTATTAAA
1 TAATATTATTATTAAA
2109043 TTAAAATTAT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
27 6 0.18
28 25 0.76
29 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (28 bp):
TAATATTATTATTAAAAAAGTATGATTA
Found at i:2109062 original size:31 final size:31
Alignment explanation
Indices: 2109002--2109070 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
2108992 TATATCTATA
*
2109002 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAATAAAAAATTATGATAATTAT
* *
2109032 ATTTTATTAAAT-TAAAATTATTATAAATTAT
1 ATTTTATTAAATAAAAAATTATGAT-AATTAT
2109063 A-TTTATTA
1 ATTTTATTA
2109071 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 23 0.68
31 11 0.32
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTTATTAAATAAAAAATTATGATAATTAT
Found at i:2109643 original size:198 final size:197
Alignment explanation
Indices: 2109171--2109804 Score: 886
Period size: 198 Copynumber: 3.2 Consensus size: 197
2109161 CACATATGTT
* * * * * *
2109171 ACATCGAAACCGATAATTATAATGTAATAAGTAAATTTACAATCTAACC-AGTATAAATAT-GCT
1 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGA-TAGAAATATATC-
* * * ***
2109234 GGTTTTATGAGAGAATATGTCTACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACATTT
64 GGTTTTATGAGAAAATAGGTCTACATAATGTATCGACAC-ATTTTAAGTTTGTGTCGATAC-TTT
*
2109298 TGTCCAGAATGAATGCCAAACGAGGTGCACGTATAAAGTGTCGATACATTTATTAAAAGTATCGA
127 T-TCCAGAATGAATGCC-AACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGA
2109363 TCCCAAAA
190 TCCCAAAA
* * *
2109371 ACATAGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACTCGATAGAAATATATCGA
1 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATATCGG
2109436 TTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTCC
66 TTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTT-C
*
2109501 CAGAATGAATGTCCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCC
130 CAGAATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCC
2109566 AAAA
194 AAAA
* *
2109570 A-ATCCAAACCGATAATTACAATGTAATAGGTAAATTTGCAATGTACCCGATAGAAATATATCGG
1 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATATCGG
* * *
2109634 TTTTATGAGAAAATAGGTCTACATAATGTATCAACACGTTTTAAGTTTGTGTCGATATTTTTTTC
66 TTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATA-CTTTTTC
*
2109699 CAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAATTA-TATCGATC
130 CAGAATGAATG-CCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAA--AGTATCGATC
2109761 CCAAAA
192 CCAAAA
* *
2109767 ACATCGAAACAGATAATTATAATGTAATAGGTAAATTT
1 ACATCGAAACCGATAATTACAATGTAATAGGTAAATTT
2109805 GTAATATTAC
Statistics
Matches: 394, Mismatches: 31, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
196 3 0.01
197 15 0.04
198 194 0.49
199 81 0.21
200 99 0.25
201 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (197 bp):
ACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTACCCGATAGAAATATATCGG
TTTTATGAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTTTGTGTCGATACTTTTTCC
AGAATGAATGCCAACGAGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA
AA
Found at i:2109953 original size:23 final size:23
Alignment explanation
Indices: 2109927--2109977 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2109917 ACAGTAATTA
** * *
2109927 ACCTATTTTATTATATAAGCGTT
1 ACCTATTACATTATATAAACGCT
2109950 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
2109973 ACCTA
1 ACCTA
2109978 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:2109955 original size:87 final size:87
Alignment explanation
Indices: 2109852--2110090 Score: 390
Period size: 87 Copynumber: 2.7 Consensus size: 87
2109842 GAATATGTCA
* *
2109852 ATATAAGCGCTACCTATTACATTATATAAACATTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACACTACCTAATATGTTATTGTACTTGATAATATTT
2109917 ACAGTAATTAACCTATTTTATT
66 ACAGTAATTAACCTATTTTATT
* * *
2109939 ATATAAGCGTTACCTATTACATTATATAAACGCTACCTAATATGTTATTG-AGCTTGATAATGTT
1 ATATAAGCGCTACCTATTACATTATATAAACACTACCTAATATGTTATTGTA-CTTGATAATATT
*
2110003 TATAGTAATTAACCTATTTTATT
65 TACAGTAATTAACCTATTTTATT
* *
2110026 ATATAAGCGCTACCTATTACATTATATAAACACTACCTAATTTGTTATTTTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACACTACCTAATATGTTATTGTACTTGATAATATTT
2110091 TCGGTTAAAT
Statistics
Matches: 139, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 137 0.99
88 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACACTACCTAATATGTTATTGTACTTGATAATATTT
ACAGTAATTAACCTATTTTATT
Found at i:2110041 original size:23 final size:23
Alignment explanation
Indices: 2110014--2110073 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2110004 ATAGTAATTA
* *
2110014 ACCTATTTTATTATATAAGCGCT
1 ACCTATTTTATTATATAAACACT
**
2110037 ACCTATTACATTATATAAACACT
1 ACCTATTTTATTATATAAACACT
* *
2110060 ACCTAATTTGTTAT
1 ACCTATTTTATTAT
2110074 TTTACTTGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (23 bp):
ACCTATTTTATTATATAAACACT
Found at i:2110163 original size:20 final size:20
Alignment explanation
Indices: 2110127--2110165 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
2110117 TCTAAATTTT
2110127 AATCAGTTATTTATTTAACC
1 AATCAGTTATTTATTTAACC
2110147 AATCACGTTATTT-TTTAAC
1 AATCA-GTTATTTATTTAAC
2110166 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
AATCAGTTATTTATTTAACC
Found at i:2111477 original size:18 final size:18
Alignment explanation
Indices: 2111454--2111490 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2111444 AATAAAATTG
*
2111454 AGTATATAAAAATATTAA
1 AGTATATAAAAATAATAA
2111472 AGTATATAAAAATAATAA
1 AGTATATAAAAATAATAA
2111490 A
1 A
2111491 AAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AGTATATAAAAATAATAA
Found at i:2111496 original size:18 final size:18
Alignment explanation
Indices: 2111457--2111496 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2111447 AAAATTGAGT
* **
2111457 ATATAAAAATATTAAAGT
1 ATATAAAAATAATAAAAA
2111475 ATATAAAAATAATAAAAA
1 ATATAAAAATAATAAAAA
2111493 ATAT
1 ATAT
2111497 TTTATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (18 bp):
ATATAAAAATAATAAAAA
Found at i:2112245 original size:30 final size:30
Alignment explanation
Indices: 2112209--2112271 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
2112199 AACCGGTAGC
* * *
2112209 ACCGGCTGAGAACCGATAAAACCAGTGTGA
1 ACCGGCTGAAAACCGACAAAACCAATGTGA
*
2112239 ACCGGCTGAAAACCGGCAAAACCAATGTGA
1 ACCGGCTGAAAACCGACAAAACCAATGTGA
2112269 ACC
1 ACC
2112272 ACCGCTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.24, T:0.11
Consensus pattern (30 bp):
ACCGGCTGAAAACCGACAAAACCAATGTGA
Found at i:2112696 original size:70 final size:70
Alignment explanation
Indices: 2112615--2112747 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 70
2112605 TAGAAGTCAG
* **
2112615 TTGGGACGCTCTACTATGTTTCTTAGCTATTTGAGATCGTTTTGTTCTCCTATTTTTACTCTTTA
1 TTGGGACGCTCTACTATGTTTCTTAGCCACGTGAGATCGTTTTGTTCTCCTATTTTTACTCTTTA
2112680 GACTT
66 GACTT
* * * *
2112685 TTGGGATGCTCTTCTATGTTTCTTAGCCACGTGAGATTGTTTTGTTCTCCTATTTTTGCTCTT
1 TTGGGACGCTCTACTATGTTTCTTAGCCACGTGAGATCGTTTTGTTCTCCTATTTTTACTCTT
2112748 CTATGCTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (70 bp):
TTGGGACGCTCTACTATGTTTCTTAGCCACGTGAGATCGTTTTGTTCTCCTATTTTTACTCTTTA
GACTT
Found at i:2115409 original size:14 final size:15
Alignment explanation
Indices: 2115382--2115414 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2115372 GTAAGACTTT
2115382 TTATTTTCATTATTA
1 TTATTTTCATTATTA
*
2115397 TTATTTT-ATTATTC
1 TTATTTTCATTATTA
2115411 TTAT
1 TTAT
2115415 CTCACTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTCATTATTA
Found at i:2118417 original size:32 final size:32
Alignment explanation
Indices: 2118380--2118464 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 32
2118370 CAATAGAGAA
* *
2118380 CATCTTTAAAGATTCAATATCAAATGTTGGGG
1 CATCTTTAAAGATTCAACATCAAATATTGGGG
***
2118412 CATCTTCCGAGATTCAACATCAAATATTGGGG
1 CATCTTTAAAGATTCAACATCAAATATTGGGG
***
2118444 CATCTTTGGGGATTCAACATC
1 CATCTTTAAAGATTCAACATC
2118465 CTGATGCGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (32 bp):
CATCTTTAAAGATTCAACATCAAATATTGGGG
Found at i:2119301 original size:43 final size:43
Alignment explanation
Indices: 2119196--2119301 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
2119186 AATGGGACAT
* ** *
2119196 CCACGATTTCAACTCCACGACAGAGGATATCGTACCAACGGAT
1 CCACGATTTCAACTCCACGACAGAAGATATCGTACCAACACAA
* * *
2119239 CCACGATTTTAACTCCACGACAGAAGATATCGTGCCCACACAA
1 CCACGATTTCAACTCCACGACAGAAGATATCGTACCAACACAA
*
2119282 CCAC-AGTTTCAACTTCACGA
1 CCACGA-TTTCAACTCCACGA
2119302 TAAAGGGAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (43 bp):
CCACGATTTCAACTCCACGACAGAAGATATCGTACCAACACAA
Found at i:2119860 original size:118 final size:118
Alignment explanation
Indices: 2119661--2119891 Score: 349
Period size: 118 Copynumber: 2.0 Consensus size: 118
2119651 AACAATATTC
* * *
2119661 ATCTTTAGATTGGATTTCAACTTCACGAAGAAGGATATCCAATTTCTAGGCTCAACTTCACAACG
1 ATCTTTAGATTGGATTTCAACTTCACGAAGAAGGATATCCAATTTCAAAGCTCAACTTCAAAACG
* * *
2119726 AAGGGGTCATTCACGATTTCAACTTCACGACAAAGGATATCGTGCCCACATTT
66 AAGGAGTCACTCACGATTTCAACTTCACGACAAAGGATATCGTACCCACATTT
* *
2119779 ATCTTTAGATTGGATTTCAACTTCACGACGAAGGATATTCAATTT-AAAGCTCAACTT-AAAAGC
1 ATCTTTAGATTGGATTTCAACTTCACGAAGAAGGATATCCAATTTCAAAGCTCAACTTCAAAA-C
*
2119842 GAAGGAGTCACTCTACGATTTCAACTTCACGACGAAGGATATCGTACCCA
65 GAAGGAGTCACTC-ACGATTTCAACTTCACGACAAAGGATATCGTACCCA
2119892 AGAGATTGAC
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 3 0.03
117 22 0.22
118 77 0.75
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (118 bp):
ATCTTTAGATTGGATTTCAACTTCACGAAGAAGGATATCCAATTTCAAAGCTCAACTTCAAAACG
AAGGAGTCACTCACGATTTCAACTTCACGACAAAGGATATCGTACCCACATTT
Found at i:2121871 original size:87 final size:87
Alignment explanation
Indices: 2121725--2121888 Score: 258
Period size: 87 Copynumber: 1.9 Consensus size: 87
2121715 GGTCGCGACA
*
2121725 ATTATCAAGCACAATAACATATTAGGTAAAACTTATATAATATAATATGTAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTAAAACTTATATAATATAATAGGTAGCGCTTATATAATA
2121790 AAATAGGTTAATTACTGGAAAC
66 AAATAGGTTAATTACTGGAAAC
* ** *
2121812 ATTATCAAGCACAATAACATATTATGTAGCACTTATATAA-AGTAATAGGTAGTGCTTATATAAT
1 ATTATCAAGCACAATAACATATTAGGTAAAACTTATATAATA-TAATAGGTAGCGCTTATATAAT
*
2121876 AAAATATGTTAAT
65 AAAATAGGTTAAT
2121889 AATTTAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
86 1 0.01
87 69 0.99
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.34
Consensus pattern (87 bp):
ATTATCAAGCACAATAACATATTAGGTAAAACTTATATAATATAATAGGTAGCGCTTATATAATA
AAATAGGTTAATTACTGGAAAC
Found at i:2122132 original size:156 final size:156
Alignment explanation
Indices: 2121934--2122248 Score: 585
Period size: 156 Copynumber: 2.0 Consensus size: 156
2121924 CTCCTAAAAT
*
2121934 ATTACCAAGGATAATATAACCGGTTATTTACTGGAAACATTATCAAGTATAATAATATAAACGGT
1 ATTACCAAGGATAACATAACCGGTTATTTACTGGAAACATTATCAAGTATAATAATATAAACGGT
2121999 AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
66 AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
* *
2122064 TTTAAATAAGTATCGATACTTTTGGA
131 TTTAAATAAGTATCGACACTTTTAGA
* *
2122090 ATTACCAAGGATAACATAACCGGTTATTTACTGGAAATATTATCAAGTATAATAATGTAAACGGT
1 ATTACCAAGGATAACATAACCGGTTATTTACTGGAAACATTATCAAGTATAATAATATAAACGGT
2122155 AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
66 AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
2122220 TTTAAATAAGTATCGACACTTTTAGA
131 TTTAAATAAGTATCGACACTTTTAGA
2122246 ATT
1 ATT
2122249 TAAAAGAAAA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (156 bp):
ATTACCAAGGATAACATAACCGGTTATTTACTGGAAACATTATCAAGTATAATAATATAAACGGT
AAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCAGATATGTTGAAAGTGTCGATTCCA
TTTAAATAAGTATCGACACTTTTAGA
Found at i:2122449 original size:23 final size:23
Alignment explanation
Indices: 2122415--2122493 Score: 122
Period size: 23 Copynumber: 3.4 Consensus size: 23
2122405 CCAGTAATTA
*
2122415 ACCTATTCTATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
*
2122438 GCCTATTATATTATATAAGCGCT
1 ACCTATTATATTATATAAGCGCT
* *
2122461 ACCTATTACATTATATAAGCGGT
1 ACCTATTATATTATATAAGCGCT
2122484 ACCTATTATA
1 ACCTATTATA
2122494 ACTTTGTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:2124192 original size:12 final size:12
Alignment explanation
Indices: 2124175--2124208 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2124165 ATATATGTAT
2124175 GTATGTACGTAC
1 GTATGTACGTAC
*
2124187 GTATGTACATAC
1 GTATGTACGTAC
*
2124199 ATATGTACGT
1 GTATGTACGT
2124209 GTGTATATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (12 bp):
GTATGTACGTAC
Found at i:2131778 original size:18 final size:19
Alignment explanation
Indices: 2131736--2131775 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2131726 TTTGATTCAC
2131736 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-G
*
2131756 GGAATGTAAGATTATCAGG
1 GGAATGTAAGATTACCAGG
2131775 G
1 G
2131776 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:2133244 original size:3 final size:3
Alignment explanation
Indices: 2133229--2133380 Score: 191
Period size: 3 Copynumber: 51.0 Consensus size: 3
2133219 TACTATTTTT
* *
2133229 TTA TTCA TT- TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TCA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
2133274 TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
2133322 TTA TTA TTA TCA TTA TTA ATA TTA TTT TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2133370 TT- TTA TTA TTA
1 TTA TTA TTA TTA
2133381 AATATATTAA
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
2 4 0.03
3 119 0.94
4 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2133254 original size:21 final size:21
Alignment explanation
Indices: 2133238--2133389 Score: 236
Period size: 21 Copynumber: 7.3 Consensus size: 21
2133228 TTTATTCATT
*
2133238 TTATTATTATTATTATTAATA
1 TTATTATTATCATTATTAATA
2133259 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
2133280 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
2133301 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
2133322 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
* * *
2133343 TTATTTTTATTATTATTATTA
1 TTATTATTATCATTATTAATA
*
2133364 TTATTATT-TTATTATTAA-A
1 TTATTATTATCATTATTAATA
2133383 TATATTA
1 T-TATTA
2133390 AATACATATA
Statistics
Matches: 124, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
19 2 0.02
20 14 0.11
21 108 0.87
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTATTATCATTATTAATA
Found at i:2135533 original size:17 final size:17
Alignment explanation
Indices: 2135513--2135559 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
2135503 TCAAATTTTT
2135513 TTATTTTTATTTATTTA
1 TTATTTTTATTTATTTA
*
2135530 TTATTTTTATAATATTTA
1 TTATTTTTAT-TTATTTA
2135548 -TATGTTTTATTT
1 TTAT-TTTTATTT
2135560 GCAAGTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTTATTTATTTA
Found at i:2146175 original size:7 final size:7
Alignment explanation
Indices: 2146163--2146211 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
2146153 ATTATGCTTG
2146163 AAGAAAA
1 AAGAAAA
2146170 AAG--AA
1 AAGAAAA
2146175 AAGAAAA
1 AAGAAAA
2146182 AAGAAAA
1 AAGAAAA
2146189 GAA-AAAA
1 -AAGAAAA
*
2146196 TAGAAAA
1 AAGAAAA
*
2146203 TAGAAAA
1 AAGAAAA
2146210 AA
1 AA
2146212 AGAGAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 5 0.14
6 1 0.03
7 28 0.78
8 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (7 bp):
AAGAAAA
Found at i:2146180 original size:12 final size:12
Alignment explanation
Indices: 2146163--2146227 Score: 69
Period size: 12 Copynumber: 5.1 Consensus size: 12
2146153 ATTATGCTTG
2146163 AAGAAAAAAGAA
1 AAGAAAAAAGAA
2146175 AAGAAAAAAGAA
1 AAGAAAAAAGAA
2146187 AAGAAAAAATAGAAA
1 AAG-AAAAA-AG-AA
*
2146202 ATAGAAAAAAAGAG
1 A-AG-AAAAAAGAA
2146216 AAG-AAAAAGAA
1 AAGAAAAAAGAA
2146227 A
1 A
2146228 GGGGGTCAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.17
12 15 0.32
13 7 0.15
14 4 0.09
15 5 0.11
16 8 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:2147258 original size:52 final size:53
Alignment explanation
Indices: 2147193--2147551 Score: 604
Period size: 52 Copynumber: 6.9 Consensus size: 53
2147183 ATGGAAAAGC
2147193 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-G
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
2147245 ATCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
2147298 A-CAGAACATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
2147350 A-CAGAACATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTT-G
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
2147401 ATCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-G
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
*
2147453 ATCATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
* * *
2147506 A-CAGAACATAGCATTTTCTGGAAGTGTCCTTTGAGATATCTGATCT
1 ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
2147552 AATTAGATAG
Statistics
Matches: 295, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
51 2 0.01
52 289 0.98
53 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (53 bp):
ATCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG
Found at i:2148388 original size:119 final size:119
Alignment explanation
Indices: 2148183--2148977 Score: 1388
Period size: 119 Copynumber: 6.7 Consensus size: 119
2148173 AATCCATCAC
* * *
2148183 TTGATGGATCAATCTTTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGCAGAAGGA
1 TTGATGGATC-ATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
* *
2148248 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAA
65 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
2148303 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
*
2148368 GAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
* *
2148422 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAG
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
*
2148487 GAAG-AGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
2148540 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
2148605 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
2148659 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
2148724 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
2148778 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
* *
2148843 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATC-AG
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
* * *
2148896 TTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
* *
2148956 GAAAAAGTTCATAATAAGAAGA
66 GAAGAAGTTCATAATGAGAAGA
2148978 TCTCATCAAG
Statistics
Matches: 654, Mismatches: 20, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
113 36 0.06
114 1 0.00
116 18 0.03
117 3 0.00
118 134 0.20
119 452 0.69
120 10 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (119 bp):
TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
Found at i:2148614 original size:237 final size:238
Alignment explanation
Indices: 2148183--2148977 Score: 1397
Period size: 237 Copynumber: 3.4 Consensus size: 238
2148173 AATCCATCAC
* * *
2148183 TTGATGGATCAATCTTTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGCAGAAGGA
1 TTGATGGATC-ATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
2148248 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATC
65 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATC
2148313 ATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
130 ATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTC
*
2148378 ATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAAA
195 ATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
*
2148422 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAG-A
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
* *
2148486 GGAAGAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATCA
66 GAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATCA
2148551 TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
131 TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
2148616 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
196 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
2148659 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
* *
2148724 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCA
66 GAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATCA
2148789 TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
131 TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
2148854 TAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATC-AG
196 TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
* * *
2148896 TTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAA
1 TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
*
2148956 GAAAAAGTTCATAATAAGAAGA
66 GAAAAAGTTCATAATGAGAAGA
2148978 TCTCATCAAG
Statistics
Matches: 536, Mismatches: 19, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
232 36 0.07
233 1 0.00
235 18 0.03
236 3 0.01
237 253 0.47
238 215 0.40
239 10 0.02
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (238 bp):
TTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAA
GAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGATGGATCA
TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAA
Found at i:2148902 original size:356 final size:355
Alignment explanation
Indices: 2148177--2148977 Score: 1396
Period size: 356 Copynumber: 2.3 Consensus size: 355
2148167 AATTTAAATC
* * *
2148177 CATCACTTGATGGATCAATCTTTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGCA
1 CATCAATTGATGGATC-ATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
*
2148242 GAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCATCAAATTGA
65 GAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGA
2148307 TGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
130 TGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
*
2148372 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCAT
195 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCAT
*
2148437 TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAGGAAGAGTTCATAATG
260 TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAGTTCATAATG
*
2148502 AGAAGAACTTGTTCAATCTTTTGCTTGAATT
325 AGAAGAACTTGTTCAACCTTTTGCTTGAATT
*
2148533 CATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
1 CATC-AATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAA
*
2148598 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGA
65 GAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGA
2148663 TGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
130 TGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAG
2148728 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCAT
195 AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCAT
*
2148793 TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
260 TTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAG-AGTTCATAAT
*
2148858 GAGAAGAATTTGTTCAACCTTTTGCTTGAATT
324 GAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * *
2148890 CATCAGTTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAG
1 CATCAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
*
2148950 AAGGAAGAAAAAGTTCATAATAAGAAGA
66 AAGGAAGAAAAAGTTCATAATGAGAAGA
2148978 TCTCATCAAG
Statistics
Matches: 426, Mismatches: 17, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
351 36 0.08
352 1 0.00
354 18 0.04
355 3 0.01
356 313 0.73
357 55 0.13
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (355 bp):
CATCAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
AAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGAT
GGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAAATTGATGGATCATCATT
TCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAGAAGAAGAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:2149236 original size:3 final size:3
Alignment explanation
Indices: 2149221--2149372 Score: 182
Period size: 3 Copynumber: 51.0 Consensus size: 3
2149211 TACTATTTTT
* *
2149221 TTA TTCA TT- TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TCA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
2149266 TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
2149314 TTA TTA TTG TCA TTA TTA ATA TTA TTT TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2149362 TT- TTA TTA TTA
1 TTA TTA TTA TTA
2149373 AATATATTAA
Statistics
Matches: 124, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
2 4 0.03
3 117 0.94
4 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2149246 original size:21 final size:21
Alignment explanation
Indices: 2149230--2149381 Score: 227
Period size: 21 Copynumber: 7.3 Consensus size: 21
2149220 TTTATTCATT
*
2149230 TTATTATTATTATTATTAATA
1 TTATTATTATCATTATTAATA
2149251 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
2149272 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
2149293 TTATTATTATCATTATTAATA
1 TTATTATTATCATTATTAATA
*
2149314 TTATTATTGTCATTATTAATA
1 TTATTATTATCATTATTAATA
* * *
2149335 TTATTTTTATTATTATTATTA
1 TTATTATTATCATTATTAATA
*
2149356 TTATTATT-TTATTATTAA-A
1 TTATTATTATCATTATTAATA
2149375 TATATTA
1 T-TATTA
2149382 AATACATATA
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
19 2 0.02
20 14 0.11
21 106 0.87
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (21 bp):
TTATTATTATCATTATTAATA
Found at i:2153283 original size:35 final size:35
Alignment explanation
Indices: 2153231--2153333 Score: 181
Period size: 35 Copynumber: 2.9 Consensus size: 35
2153221 CGAATAGAGC
*
2153231 CGATGATTCTAAT-GAAGCAGTATTGTTGCATACGT
1 CGATGATTCT-ATCGAAGCAGTATCGTTGCATACGT
2153266 CGATGATTCTATCGAAGCAGTATCGTTGCATACGT
1 CGATGATTCTATCGAAGCAGTATCGTTGCATACGT
2153301 CGATGATTCTATCGAAGCAGTATCGTTGCATAC
1 CGATGATTCTATCGAAGCAGTATCGTTGCATAC
2153334 ACTCATCAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 2 0.03
35 64 0.97
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (35 bp):
CGATGATTCTATCGAAGCAGTATCGTTGCATACGT
Found at i:2157210 original size:22 final size:24
Alignment explanation
Indices: 2157180--2157224 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2157170 AGGTATGCCA
*
2157180 GTGCTAAAAGTCAT-CACCGAAAG
1 GTGCTAAAAGTAATGCACCGAAAG
*
2157203 GTGC-AAAATTAATGCACCGAAA
1 GTGCTAAAAGTAATGCACCGAAA
2157225 AGAAGCTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (24 bp):
GTGCTAAAAGTAATGCACCGAAAG
Found at i:2161855 original size:23 final size:23
Alignment explanation
Indices: 2161801--2161855 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
2161791 CTAAAAATCA
*
2161801 GCACCGAAATGTGCAAAATTAAT
1 GCACCGAAAGGTGCAAAATTAAT
**
2161824 GCATTGAAAGGTGCAAAATTAAT
1 GCACCGAAAGGTGCAAAATTAAT
2161847 GCACCGAAA
1 GCACCGAAA
2161856 AGAAGCTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (23 bp):
GCACCGAAAGGTGCAAAATTAAT
Found at i:2164984 original size:14 final size:14
Alignment explanation
Indices: 2164965--2165003 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2164955 TAATGGGGAG
2164965 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
2164979 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
2164993 GAATCTCTGCA
1 TAATCCCTGCA
2165004 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:2165831 original size:20 final size:20
Alignment explanation
Indices: 2165806--2165877 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
2165796 TTTTCCCAAT
2165806 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
2165826 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* * *
2165846 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
2165867 TCGCAATGCGA
1 TCGCAATGCGA
2165878 TGCTGACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
20 31 0.66
21 16 0.34
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:2165933 original size:20 final size:20
Alignment explanation
Indices: 2165908--2165960 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2165898 TAATAAAAAA
* * *
2165908 TCGCAACGAGATACTTATTT
1 TCGCAACGCGATACTGACTT
2165928 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
2165948 TCGCAACGCGATA
1 TCGCAACGCGATA
2165961 ATACATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:2166176 original size:22 final size:22
Alignment explanation
Indices: 2166148--2166191 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2166138 CACTCTCTCA
2166148 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2166170 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2166192 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2166480 original size:20 final size:20
Alignment explanation
Indices: 2166455--2166492 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2166445 CGATTCTCTC
2166455 GTTGCGATGGTCATTTTCGT
1 GTTGCGATGGTCATTTTCGT
**
2166475 GTTGCGATTTTCATTTTC
1 GTTGCGATGGTCATTTTC
2166493 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.50
Consensus pattern (20 bp):
GTTGCGATGGTCATTTTCGT
Found at i:2167833 original size:18 final size:18
Alignment explanation
Indices: 2167812--2167856 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2167802 TCCACTTCGG
*
2167812 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2167830 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2167848 GAGCCATCA
1 GAGCCATCA
2167857 TTTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2168357 original size:20 final size:20
Alignment explanation
Indices: 2168332--2168377 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2168322 TAGTTTACTT
2168332 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
2168352 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
2168372 TCGCAA
1 TCGCAA
2168378 TGCGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:2168406 original size:14 final size:14
Alignment explanation
Indices: 2168387--2168444 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2168377 ATGCGAAATA
2168387 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2168401 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
2168417 ATGAAATCGTAACGAC
1 A--AAATCGCAACGAC
2168433 AAAATCGCAACG
1 AAAATCGCAACG
2168445 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2168431 original size:32 final size:32
Alignment explanation
Indices: 2168371--2168454 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
2168361 GGAAATGGCT
*
2168371 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAAT-GAAATCGCAACGACAAA
*
2168404 ATCGCAATGCGAAATGAAATCGTAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
2168436 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2168455 ATCACAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 33 0.69
33 15 0.31
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:2168497 original size:14 final size:14
Alignment explanation
Indices: 2168478--2168535 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2168468 TTGTGTTTCG
*
2168478 CGTTGCGATTTTGT
1 CGTTGCGATTTTTT
2168492 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
2168508 CGTGTTGCGATTTTTT
1 C--GTTGCGATTTTTT
2168524 CGTTGCGATTTT
1 CGTTGCGATTTT
2168536 CATTTCGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 22 0.56
16 7 0.18
18 10 0.26
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.52
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:2168507 original size:19 final size:18
Alignment explanation
Indices: 2168493--2168609 Score: 80
Period size: 20 Copynumber: 6.4 Consensus size: 18
2168483 CGATTTTGTC
2168493 GTTGCGATTTCATTTCGT
1 GTTGCGATTTCATTTCGT
2168511 GTTGCGATTT--TTTC--
1 GTTGCGATTTCATTTCGT
*
2168525 GTTGCGATTTTCATTTCGC
1 GTTGCGA-TTTCATTTCGT
* ** *
2168544 ATTGCGATAGCCATTTCCGC
1 GTTGCGAT-TTCATTT-CGT
* *
2168564 GTTGCGATAGTCATTTCGC
1 GTTGCGAT-TTCATTTCGT
*
2168583 GTTGCGATTTTAAGTTTCGT
1 GTTGCGA-TTTCA-TTTCGT
2168603 GTTGCGA
1 GTTGCGA
2168610 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
14 7 0.09
15 3 0.04
16 4 0.05
17 4 0.05
18 11 0.13
19 23 0.28
20 30 0.37
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.44
Consensus pattern (18 bp):
GTTGCGATTTCATTTCGT
Found at i:2168515 original size:32 final size:33
Alignment explanation
Indices: 2168473--2168551 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2168463 GCGATTTGTG
2168473 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
* *
2168505 TTTCGTGTTGCGATTTTTTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2168538 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2168552 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.18, G:0.23, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2168570 original size:20 final size:19
Alignment explanation
Indices: 2168536--2168590 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
2168526 TTGCGATTTT
*
2168536 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2168555 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
2168575 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
2168591 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2170638 original size:19 final size:19
Alignment explanation
Indices: 2170614--2170681 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2170604 ATCGCAACGA
2170614 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2170633 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2170652 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2170666 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2170682 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2171708 original size:24 final size:24
Alignment explanation
Indices: 2171681--2171734 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2171671 GTATTCGAAA
* *
2171681 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
2171705 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
2171729 TTTGAT
1 TTTGAT
2171735 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:2171926 original size:12 final size:12
Alignment explanation
Indices: 2171909--2171933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2171899 ATATAATCCT
2171909 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2171921 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2171933 G
1 G
2171934 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2174269 original size:33 final size:33
Alignment explanation
Indices: 2174227--2174326 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
2174217 GAAATTACTA
* *
2174227 TCGCAATGCGAAATGAAAATTGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
2174260 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
2174293 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
2174326 T
1 T
2174327 AATTTCGCGT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
31 4 0.07
33 52 0.88
35 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:2174284 original size:19 final size:19
Alignment explanation
Indices: 2174260--2174323 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
2174250 AACGCTAATT
2174260 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
**
2174279 TCGCAA--CG--A-GGGAA
1 TCGCAATGCGAAATGAAAA
2174293 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
2174312 TCGCAACGCGAA
1 TCGCAATGCGAA
2174324 TTTAATTTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:2174341 original size:19 final size:20
Alignment explanation
Indices: 2174319--2174361 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2174309 AAATCGCAAC
2174319 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
2174338 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
2174358 GCGA
1 GCGA
2174362 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:2174346 original size:14 final size:14
Alignment explanation
Indices: 2174347--2174380 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2174337 TGCGATTTTC
2174347 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
2174361 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
2174375 ATTTTC
1 ATTTTC
2174381 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:2174521 original size:14 final size:14
Alignment explanation
Indices: 2174502--2174538 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2174492 CATCAATTAA
2174502 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2174516 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2174530 ACAAATCAA
1 ACAAATCAA
2174539 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2175962 original size:21 final size:21
Alignment explanation
Indices: 2175896--2175962 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2175886 GTGAATCGGG
2175896 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAATGGTGGGAGGGGA
* * * ** * *
2175916 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAATGGTGGGAGGGGA
2175938 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGGTGGGAGGGGA
2175959 CTCT
1 CTCT
2175963 CGAGGAATGA
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGA
Found at i:2175981 original size:42 final size:41
Alignment explanation
Indices: 2175896--2176018 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2175886 GTGAATCGGG
* * * *
2175896 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
2175938 CTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
2175980 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
2176019 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:2177166 original size:21 final size:22
Alignment explanation
Indices: 2177124--2177166 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
2177114 AATAACAAAC
*
2177124 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
2177146 ATTA-TAATT-TTAAAAACATTA
1 ATTAGTAATTGTTAAAAA-ATTA
2177167 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:2178102 original size:33 final size:33
Alignment explanation
Indices: 2178045--2178143 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
2178035 ACGAGATAAT
*
2178045 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
2178079 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
2178112 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
2178144 GTGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:2178137 original size:19 final size:19
Alignment explanation
Indices: 2178020--2178204 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
2178010 TCTTTTGGTT
*
2178020 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2178039 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2178059 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2178077 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2178093 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2178111 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2178126 GAAATGAAAATCGCAACCGT
1 GAAATGAAAATCGCAA-CGC
*
2178146 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2178165 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2178184 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2178203 GA
1 GA
2178205 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.45
20 44 0.32
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2178169 original size:39 final size:38
Alignment explanation
Indices: 2178115--2178204 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
2178105 GCGACCAGAC
*
2178115 AATCGCAACGCGAAATGAAAATCGCAACCGTGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
*
2178154 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
2178192 AATCGCAATGCGA
1 AATCGCAACGCGA
2178205 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.12
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:2178233 original size:19 final size:19
Alignment explanation
Indices: 2178200--2178266 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2178190 AAAATCGCAA
**
2178200 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
2178219 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
2178238 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
2178258 TGCGATTTT
1 TGCGATTTT
2178267 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:2178837 original size:20 final size:20
Alignment explanation
Indices: 2178788--2178898 Score: 116
Period size: 20 Copynumber: 5.5 Consensus size: 20
2178778 CGCTATGTAA
* * *
2178788 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
2178808 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
2178828 ATCTCATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
2178849 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
2178869 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
2178889 ATCGCATTGC
1 ATCGCATTGC
2178899 AATTTTCCCA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:2178886 original size:61 final size:61
Alignment explanation
Indices: 2178788--2178904 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
2178778 CGCTATGTAA
* * * * *
2178788 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCATTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTATT
* * *
2178849 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCAATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTT
2178905 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCAATTTTGTATT
Done.