Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_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: 1941792
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 10
Found at i:1260272 original size:8 final size:8
Alignment explanation
Indices: 1260261--1260310 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
1260251 TAACTTTAAT
1260261 CTCTCAAA
1 CTCTCAAA
1260269 CTCTCAAA
1 CTCTCAAA
*
1260277 CTTTCAAAA
1 CTCTC-AAA
1260286 CT-TCAAA
1 CTCTCAAA
*
1260293 CTTTCAAA
1 CTCTCAAA
*
1260301 CGCTCAAA
1 CTCTCAAA
1260309 CT
1 CT
1260311 ACGAAAATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 5 0.14
8 26 0.72
9 5 0.14
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (8 bp):
CTCTCAAA
Found at i:1260291 original size:16 final size:17
Alignment explanation
Indices: 1260266--1260310 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
1260256 TTAATCTCTC
1260266 AAACTCTCAAACTTTCA
1 AAACTCTCAAACTTTCA
1260283 AAACT-TCAAACTTTC-
1 AAACTCTCAAACTTTCA
*
1260298 AAACGCTCAAACT
1 AAACTCTCAAACT
1260311 ACGAAAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (17 bp):
AAACTCTCAAACTTTCA
Found at i:1266307 original size:23 final size:24
Alignment explanation
Indices: 1266274--1266320 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
1266264 TAAAAATAAA
*
1266274 ATTTTTATTTATAATTAAGTTTCT
1 ATTTTTATTTAAAATTAAGTTTCT
*
1266298 ATTTTT-TTTAAAATTAATTTTCT
1 ATTTTTATTTAAAATTAAGTTTCT
1266321 TAAATTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTATTTAAAATTAAGTTTCT
Found at i:1266326 original size:131 final size:132
Alignment explanation
Indices: 1266148--1266411 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 132
1266138 AAGAAGCGAC
*
1266148 ATTTATAATTAAGTTTCTATTTTTTTAAAAAATTAATTTTCTTAAATTTTGATTTTTTTTTAAGT
1 ATTTATAATTAAGTTTCTATTTTTTTAAAAAATTAATTTTCTTAAATTTTGATTTTTTTTAAAGT
1266213 TTTTAAAATTTAAGGTTTTCAAAAATATATATATAATTTTAATTTTATTAATAAAAATAAAATTT
66 TTTTAAAATTTAAGGTTTTCAAAAATATATATATAATTTTAATTTTATTAATAAAAATAAAATTT
1266278 TT
131 TT
*
1266280 ATTTATAATTAAGTTTCTATTTTTTT-TAAAATTAATTTTCTTAAATTTTGATTTTTTTTAAAGT
1 ATTTATAATTAAGTTTCTATTTTTTTAAAAAATTAATTTTCTTAAATTTTGATTTTTTTTAAAGT
1266344 TTTTAAAATTTAAGGTTTTCAAAAATATATATATAATTTTAATTTTATTAATAAAAATAAAATTT
66 TTTTAAAATTTAAGGTTTTCAAAAATATATATATAATTTTAATTTTATTAATAAAAATAAAATTT
1266409 TT
131 TT
1266411 A
1 A
1266412 AAATTATCCG
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
131 104 0.80
132 26 0.20
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (132 bp):
ATTTATAATTAAGTTTCTATTTTTTTAAAAAATTAATTTTCTTAAATTTTGATTTTTTTTAAAGT
TTTTAAAATTTAAGGTTTTCAAAAATATATATATAATTTTAATTTTATTAATAAAAATAAAATTT
TT
Found at i:1271989 original size:44 final size:44
Alignment explanation
Indices: 1271939--1272037 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 44
1271929 AGTATGCAGG
1271939 TCGTGAATATCAAATACAATAAGTTTTAAGAGAA-AGCTAAGAGA
1 TCGTGAATATCAAATACAATAAGTTTTAAGAGAACA-CTAAGAGA
* * *
1271983 TCGTGAATATC-AATGCAATAAGTTTTGAGAGAACACTAAGAGG
1 TCGTGAATATCAAATACAATAAGTTTTAAGAGAACACTAAGAGA
*
1272026 TTGTGAATATCA
1 TCGTGAATATCA
1272038 TGGAATTTCC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 37 0.76
44 12 0.24
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.27
Consensus pattern (44 bp):
TCGTGAATATCAAATACAATAAGTTTTAAGAGAACACTAAGAGA
Found at i:1280642 original size:19 final size:20
Alignment explanation
Indices: 1280618--1280665 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1280608 AATGATTTTC
*
1280618 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
1280637 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
1280657 TTTTGAAAA
1 TTTTGAAAA
1280666 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:1281983 original size:20 final size:20
Alignment explanation
Indices: 1281940--1281983 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1281930 GAGGGGAGAG
***
1281940 GAGGGGAAGAGGGAGAGTGG
1 GAGGGGAAGAGGGAGAGAAA
*
1281960 GAGGGGAAGAGGGGGAGAAA
1 GAGGGGAAGAGGGAGAGAAA
1281980 GAGG
1 GAGG
1281984 AGGATAGTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.64, T:0.02
Consensus pattern (20 bp):
GAGGGGAAGAGGGAGAGAAA
Found at i:1290903 original size:20 final size:20
Alignment explanation
Indices: 1290878--1290918 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1290868 CATAACTTTT
1290878 TATTTTGATTAAATTTAATA
1 TATTTTGATTAAATTTAATA
*
1290898 TATTTTTATTAAATTTAATA
1 TATTTTGATTAAATTTAATA
1290918 T
1 T
1290919 GTTATTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTGATTAAATTTAATA
Found at i:1291503 original size:18 final size:19
Alignment explanation
Indices: 1291468--1291504 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1291458 CACGGAATGT
1291468 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1291488 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1291505 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1291671 original size:15 final size:15
Alignment explanation
Indices: 1291653--1291685 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1291643 AAATTCTAAA
1291653 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1291668 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1291683 TAT
1 TAT
1291686 ATATAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1291690 original size:15 final size:15
Alignment explanation
Indices: 1291660--1291690 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1291650 AAATATTTAA
*
1291660 ATAAAAATTATTTAT
1 ATAAAAATTATATAT
1291675 ATAAAAATTATATAT
1 ATAAAAATTATATAT
1291690 A
1 A
1291691 GTGATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAAAATTATATAT
Found at i:1297584 original size:29 final size:30
Alignment explanation
Indices: 1297521--1297588 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
1297511 ACCTGAACAT
* * *
1297521 GACCCAAATATCACATTTAAAAAATCAACCC
1 GACCCGAATATCAAACTTAAAAAA-CAACCC
*
1297552 GACCCGAATATCAAACTTAAAAAA-AACTC
1 GACCCGAATATCAAACTTAAAAAACAACCC
1297581 GACCCGAA
1 GACCCGAA
1297589 CCCGAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 12 0.36
31 21 0.64
ACGTcount: A:0.49, C:0.28, G:0.07, T:0.16
Consensus pattern (30 bp):
GACCCGAATATCAAACTTAAAAAACAACCC
Found at i:1299242 original size:18 final size:18
Alignment explanation
Indices: 1299219--1299262 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1299209 CAAATAAATT
*
1299219 TCTTTAAAAACCAGTTTC
1 TCTTTAAAAACCAATTTC
*
1299237 TCTTTAAAAATCAATTTC
1 TCTTTAAAAACCAATTTC
1299255 -CTTTAAAA
1 TCTTTAAAA
1299263 TAAAATAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (18 bp):
TCTTTAAAAACCAATTTC
Found at i:1299992 original size:22 final size:21
Alignment explanation
Indices: 1299946--1299993 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
1299936 TTTTTAGCAA
1299946 TTTAATTTTCATTTTTACTATT
1 TTTAATTTTCATTTTTA-TATT
* *
1299968 TTTAATATTTTATTTTTTATGTT
1 TTTAAT-TTTCA-TTTTTATATT
1299991 TTT
1 TTT
1299994 TAGATTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 6 0.27
23 10 0.45
24 6 0.27
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTAATTTTCATTTTTATATT
Found at i:1299992 original size:23 final size:24
Alignment explanation
Indices: 1299957--1300002 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1299947 TTAATTTTCA
*
1299957 TTTTTACTATTTTTAATATTTTAT
1 TTTTTACTATTTTTAAGATTTTAT
* *
1299981 TTTTTA-TGTTTTTTAGATTTTA
1 TTTTTACTATTTTTAAGATTTTA
1300003 AATTTATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTACTATTTTTAAGATTTTAT
Found at i:1300398 original size:25 final size:25
Alignment explanation
Indices: 1300379--1300429 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1300369 ATTAAAATAT
*
1300379 ATAACTATAAAAATAATTAATTACAA
1 ATAACT-TAAAAATAATTAATAACAA
*
1300405 ATAACTTAAAAATAATTAATTACAA
1 ATAACTTAAAAATAATTAATAACAA
1300430 TATATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAACTTAAAAATAATTAATAACAA
Found at i:1300485 original size:139 final size:137
Alignment explanation
Indices: 1300299--1300550 Score: 416
Period size: 139 Copynumber: 1.8 Consensus size: 137
1300289 GTTACAAAAC
1300299 TTGTCACTATATAACATTTTTGCACCAAAAAATAGGAGAAATATTTCTGATAGTATAAGTTTTCA
1 TTGTCACTATATAACATTTTTGCACCAAAAAATAGGAGAAATATTTCTGATAGTATAAGTTTTCA
* *
1300364 TAATGATTAAAATATATAACTATAAAAATAA-TTAATTACAAATAACTTAAAAATAATTAATTAC
66 TAATGATTAAAATATATAACTACAAAAATAATTTAA-TACAAAAAACTTAAAAATAATTAATTAC
1300428 AATATATT
130 AATATATT
* * *
1300436 TTGTTACTATATAACATTTTTGACACTAAAAAATAGGAAGAAATATTTCTGATAGTATAATTTTT
1 TTGTCACTATATAACATTTTTG-CACCAAAAAATAGG-AGAAATATTTCTGATAGTATAAGTTTT
*
1300501 CATAATGATTAAAATATATAAGTACAAAAATAATTTAATACAAAAAACTT
64 CATAATGATTAAAATATATAACTACAAAAATAATTTAATACAAAAAACTT
1300551 GATTTTTATT
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
137 21 0.20
138 13 0.12
139 68 0.64
140 4 0.04
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (137 bp):
TTGTCACTATATAACATTTTTGCACCAAAAAATAGGAGAAATATTTCTGATAGTATAAGTTTTCA
TAATGATTAAAATATATAACTACAAAAATAATTTAATACAAAAAACTTAAAAATAATTAATTACA
ATATATT
Found at i:1301382 original size:15 final size:15
Alignment explanation
Indices: 1301364--1301395 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1301354 CTAATAGTGA
*
1301364 CAAAATTAATTTTGT
1 CAAAATTAAATTTGT
1301379 CAAAATTAAATTTGT
1 CAAAATTAAATTTGT
1301394 CA
1 CA
1301396 CAATAGTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (15 bp):
CAAAATTAAATTTGT
Found at i:1302674 original size:17 final size:16
Alignment explanation
Indices: 1302654--1302701 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
1302644 AAATATAATA
1302654 AAAATAAAAATAAAGAG
1 AAAA-AAAAATAAAGAG
* *
1302671 AAAAAAAATTAAAATAG
1 AAAAAAAAAT-AAAGAG
1302688 ATAAAAAAAATAAA
1 A-AAAAAAAATAAA
1302702 ATAAAGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 13 0.50
18 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAAAAAAATAAAGAG
Found at i:1302786 original size:24 final size:23
Alignment explanation
Indices: 1302758--1302802 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
1302748 GAAGAAAATA
1302758 AAAAT-AAATAAATAAAATATAAGG
1 AAAATAAAAT-AATAAAA-ATAAGG
1302782 AAAATAAAATAATAAAAATAA
1 AAAATAAAATAATAAAAATAA
1302803 TACACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATAAAATAATAAAAATAAGG
Found at i:1302894 original size:3 final size:3
Alignment explanation
Indices: 1302888--1302913 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1302878 TAATATACAA
1302888 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1302914 AACAAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1303130 original size:9 final size:9
Alignment explanation
Indices: 1303116--1303141 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1303106 AATAAGATAT
1303116 AAAATAAAC
1 AAAATAAAC
1303125 AAAATAAAC
1 AAAATAAAC
1303134 AAAATAAA
1 AAAATAAA
1303142 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:1303215 original size:19 final size:19
Alignment explanation
Indices: 1303191--1303283 Score: 107
Period size: 19 Copynumber: 5.4 Consensus size: 19
1303181 AAATATATAT
1303191 ATAATAATGTATAGACAAA
1 ATAATAATGTATAGACAAA
1303210 ATAATAATGTATAGACAAA
1 ATAATAATGTATAGACAAA
1303229 ATAAT-A---ATAGACAAA
1 ATAATAATGTATAGACAAA
*
1303244 AT-AT-A--TAT--ATAAA
1 ATAATAATGTATAGACAAA
1303257 ATAATAATGTATAGACAAA
1 ATAATAATGTATAGACAAA
1303276 ATAATAAT
1 ATAATAAT
1303284 AGGAAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
13 6 0.09
14 5 0.08
15 14 0.22
17 3 0.05
18 1 0.02
19 36 0.55
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (19 bp):
ATAATAATGTATAGACAAA
Found at i:1303303 original size:47 final size:47
Alignment explanation
Indices: 1303207--1303305 Score: 139
Period size: 47 Copynumber: 2.1 Consensus size: 47
1303197 ATGTATAGAC
* * *
1303207 AAAATAATAATGTATAGACAAAATAATAATAGACAAAATATATATAT
1 AAAATAATAATGTATAGACAAAATAATAATAGACAAAAGATAAAAAT
1303254 AAAATAATAATGTATAGACAAAATAATAATAGGA-AATAAGA-AAAAAT
1 AAAATAATAATGTATAGACAAAATAATAATA-GACAA-AAGATAAAAAT
1303301 AAAAT
1 AAAAT
1303306 GAACAAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
47 42 0.89
48 5 0.11
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (47 bp):
AAAATAATAATGTATAGACAAAATAATAATAGACAAAAGATAAAAAT
Found at i:1303329 original size:16 final size:17
Alignment explanation
Indices: 1303298--1303341 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
1303288 AATAAGAAAA
*
1303298 AATAAAATGA-ACAAAT
1 AATAAAATAATACAAAT
1303314 AA-AAAATAATACAAAT
1 AATAAAATAATACAAAT
1303330 AATAAAATAATA
1 AATAAAATAATA
1303342 ATAATGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (17 bp):
AATAAAATAATACAAAT
Found at i:1306488 original size:20 final size:20
Alignment explanation
Indices: 1306441--1306566 Score: 137
Period size: 20 Copynumber: 6.3 Consensus size: 20
1306431 GCGATTTTCC
* *
1306441 GACTATCGCAATGCGAATAT
1 GACTATCGCAATGCGATTCT
* * *
1306461 GTA-AATCGTAATGCGATTAT
1 G-ACTATCGCAATGCGATTCT
*
1306481 GACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTCT
* *
1306501 GACTATCGCAACGAGATTCT
1 GACTATCGCAATGCGATTCT
*
1306521 GACTATCACAATGCGATTCT
1 GACTATCGCAATGCGATTCT
* *
1306541 GACTATCGCAACGCGATGCT
1 GACTATCGCAATGCGATTCT
1306561 GACTAT
1 GACTAT
1306567 TACAACGCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 1 0.01
20 88 0.98
21 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (20 bp):
GACTATCGCAATGCGATTCT
Found at i:1307182 original size:19 final size:19
Alignment explanation
Indices: 1307160--1307273 Score: 59
Period size: 20 Copynumber: 5.8 Consensus size: 19
1307150 AGAATCGCAA
1307160 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTAGTTTCGCGT
*
1307179 TGCGATTTTCA-TTACGCGT
1 TGCGATTTT-AGTTTCGCGT
* * * ** *
1307198 TACGATAGTCAAATTCACGT
1 TGCGAT-TTTAGTTTCGCGT
* * * *
1307218 TGCGATAGTCATTTTCGTGT
1 TGCGAT-TTTAGTTTCGCGT
* *
1307238 TGCGATTTTTATTTTCGTGT
1 TGCGA-TTTTAGTTTCGCGT
1307258 TGCGATTTTAAGTTTC
1 TGCGATTTT-AGTTTC
1307274 AGAAACTATT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
19 26 0.35
20 48 0.64
21 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.46
Consensus pattern (19 bp):
TGCGATTTTAGTTTCGCGT
Found at i:1307239 original size:20 final size:20
Alignment explanation
Indices: 1307216--1307263 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1307206 TCAAATTCAC
1307216 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
** *
1307236 GTTGCGATTTTTATTTTCGT
1 GTTGCGATAGTCATTTTCGT
1307256 GTTGCGAT
1 GTTGCGAT
1307264 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1307264 original size:20 final size:20
Alignment explanation
Indices: 1307228--1307266 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1307218 TGCGATAGTC
1307228 ATTTTCGTGTTGCGATTTTT
1 ATTTTCGTGTTGCGATTTTT
1307248 ATTTTCGTGTTGCGATTTT
1 ATTTTCGTGTTGCGATTTT
1307267 AAGTTTCAGA
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:0.10, C:0.10, G:0.21, T:0.59
Consensus pattern (20 bp):
ATTTTCGTGTTGCGATTTTT
Found at i:1307273 original size:20 final size:20
Alignment explanation
Indices: 1307230--1307273 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1307220 CGATAGTCAT
* *
1307230 TTTCGTGTTGCGATTTTTAT
1 TTTCGTGTTGCGATTTTAAG
1307250 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
1307270 TTTC
1 TTTC
1307274 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:1308852 original size:21 final size:21
Alignment explanation
Indices: 1308828--1308876 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1308818 TACGTGGTGA
*
1308828 GGTAGCCGCTCTACGTGAGAT
1 GGTAGCAGCTCTACGTGAGAT
*
1308849 GGTAGCATCTCTACGTGAGAT
1 GGTAGCAGCTCTACGTGAGAT
1308870 GGTAGCA
1 GGTAGCA
1308877 TCATTGCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (21 bp):
GGTAGCAGCTCTACGTGAGAT
Found at i:1308877 original size:21 final size:21
Alignment explanation
Indices: 1308836--1308878 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1308826 GAGGTAGCCG
1308836 CTCTACGTGAGATGGTAGCAT
1 CTCTACGTGAGATGGTAGCAT
1308857 CTCTACGTGAGATGGTAGCAT
1 CTCTACGTGAGATGGTAGCAT
1308878 C
1 C
1308879 ATTGCAGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
CTCTACGTGAGATGGTAGCAT
Found at i:1308984 original size:18 final size:18
Alignment explanation
Indices: 1308961--1309010 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
1308951 TTTACTCGTA
1308961 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1308979 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
1308997 ATTTCACTTAGATT
1 ATTTCACTTAGATT
1309011 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:1309183 original size:20 final size:20
Alignment explanation
Indices: 1309158--1309205 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1309148 TAGTTTACTT
1309158 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* ** *
1309178 TCGCAACGTGAATTTGTCTA
1 TCGCAACGCGAAAATGACTA
1309198 TCGCAACG
1 TCGCAACG
1309206 AAAGAATCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1309299 original size:20 final size:20
Alignment explanation
Indices: 1309250--1309303 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1309240 GTTTCTCTCT
* **
1309250 TTGCGATAGCCAAATTCGCG
1 TTGCGATAGTCATTTTCGCG
1309270 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCG
1309290 TTGCGATAGTCATT
1 TTGCGATAGTCATT
1309304 CATGTTGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCG
Found at i:1309312 original size:18 final size:19
Alignment explanation
Indices: 1309268--1309314 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1309258 GCCAAATTCG
*
1309268 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCA
1309288 CGTTGCGATAGTCA-TTCA
1 CGTTGCGATAGTCATTTCA
*
1309306 TGTTGCGAT
1 CGTTGCGAT
1309315 TCTAAGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCA
Found at i:1309892 original size:21 final size:21
Alignment explanation
Indices: 1309801--1309905 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
1309791 GACTCATCTG
*
1309801 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
1309823 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
1309843 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
1309864 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
1309885 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
1309906 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1309898 original size:42 final size:42
Alignment explanation
Indices: 1309798--1309908 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
1309788 CTCGACTCAT
* * * *
1309798 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
1309840 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
1309882 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
1309909 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.04
42 52 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:1311338 original size:14 final size:14
Alignment explanation
Indices: 1311301--1311362 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
1311291 TTGCTTGTTT
*
1311301 AATTGATTTATAAA
1 AATTGATTTGTAAA
1311315 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
1311329 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
1311344 TATTGATGTGTAAA
1 AATTGATTTGTAAA
1311358 TAATT
1 -AATT
1311363 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:1311486 original size:20 final size:20
Alignment explanation
Indices: 1311461--1311514 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1311451 ATGTACACTT
*
1311461 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGC-CAAAA
*
1311481 TCGCAATGCGAAAGCCAAAA
1 TCGCAACGCGAAAGCCAAAA
1311501 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
1311515 TCAATTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.28, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGCCAAAA
Found at i:1311582 original size:20 final size:20
Alignment explanation
Indices: 1311557--1311821 Score: 250
Period size: 20 Copynumber: 13.8 Consensus size: 20
1311547 ACGATTTTCT
* *
1311557 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
1311577 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1311597 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1311617 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1311637 CATTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
* *
1311651 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
1311671 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1311691 AGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1311711 CGTTGTGATAGAT-AAAATCG
1 CGTTGCGATAG-TCAAATTCG
* *
1311731 TGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
1311745 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
1311765 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
1311785 CGTTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAAATTCG
* *
1311805 TGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
1311822 GAATGTGTAA
Statistics
Matches: 200, Mismatches: 32, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
14 21 0.10
16 2 0.01
17 1 0.00
18 1 0.00
20 174 0.87
21 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1311646 original size:94 final size:94
Alignment explanation
Indices: 1311508--1311821 Score: 400
Period size: 94 Copynumber: 3.4 Consensus size: 94
1311498 AAATCGCAAC
* * * * *
1311508 GCGAAAGTC-AATTCGCATTGCGATAGTCTAATACGCTTTACGATTTTCTCGTTGCGATAGTCAA
1 GCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCTCGTTGCGATAGTCAA
1311572 ATACCCGTTGCGATAATCAAATTCGCGTT
66 ATACCCGTTGCGATAATCAAATTCGCGTT
*
1311601 GTGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCTCGTTGCGATAGTCAA
1 GCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCTCGTTGCGATAGTCAA
*
1311666 ATACCCGTTGCGATAATCAAATTCGAGTT
66 ATACCCGTTGCGATAATCAAATTCGCGTT
* * * **
1311695 GCGATAGTCAAATTCGCGTTGTGATAGAT-AAAATCGTGTTGCGATTTT-TGCGTTGCGATAGTC
1 GCGATAGTCAAATTCGCATTGCGATAG-TCAAATTCGCATTGCGATTTTCT-CGTTGCGATAGTC
* * ** *
1311758 ATATTCGTGTTGCGATAGTCAAATTCGCGTT
64 AAATACCCGTTGCGATAATCAAATTCGCGTT
* ** *
1311789 GCGATAGTCAAAATCGTGTTGCGATATTCAAAT
1 GCGATAGTCAAATTCGCATTGCGATAGTCAAAT
1311822 GAATGTGTAA
Statistics
Matches: 193, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
93 9 0.05
94 183 0.95
95 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (94 bp):
GCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCTCGTTGCGATAGTCAA
ATACCCGTTGCGATAATCAAATTCGCGTT
Found at i:1311679 original size:54 final size:54
Alignment explanation
Indices: 1311597--1311699 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
1311587 ATCAAATTCG
* * * *
1311597 CGTTGTGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCA-TTGCGATTTTCT
1 CGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCG-AGTTGCGATTTTCT
*
1311651 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGAGTTGCGAT
1 CGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGAGTTGCGAT
1311700 AGTCAAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.02
54 42 0.98
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATACCCATTGCGATAATCAAATTCGAGTTGCGATTTTCT
Found at i:1311749 original size:74 final size:74
Alignment explanation
Indices: 1311671--1311813 Score: 234
Period size: 74 Copynumber: 1.9 Consensus size: 74
1311661 GTCAAATACC
*
1311671 CGTTGCGATAATCAAATTCGAGTTGCGATAGTCAAATTCGCGTTGTGATAGAT-AAAATCGTGTT
1 CGTTGCGATAATCAAATTCGAGTTGCGATAGTCAAATTCGCGTTGCGATAG-TCAAAATCGTGTT
1311735 GCGATTTTTG
65 GCGATTTTTG
* * *
1311745 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAATCGTGTTG
1 CGTTGCGATAATCAAATTCGAGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAATCGTGTTG
1311810 CGAT
66 CGAT
1311814 ATTCAAATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 1 0.02
74 63 0.98
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (74 bp):
CGTTGCGATAATCAAATTCGAGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAATCGTGTTG
CGATTTTTG
Found at i:1312022 original size:129 final size:129
Alignment explanation
Indices: 1311792--1312052 Score: 459
Period size: 129 Copynumber: 2.0 Consensus size: 129
1311782 TCGCGTTGCG
* * *
1311792 ATAGTCAAAATCGTGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAAATCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATCA
1311857 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
* * *
1311921 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAGCAACTGAACAAATCG
1 ATAGTCAAAATCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATCA
*
1311986 TATCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
1312050 ATA
1 ATA
1312053 CAACGTTTGC
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 125 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (129 bp):
ATAGTCAAAATCGCGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAAATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
Found at i:1314429 original size:24 final size:24
Alignment explanation
Indices: 1314395--1314448 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1314385 CTGAAACATC
1314395 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1314419 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1314443 ATCAAA
1 ATCAAA
1314449 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1315287 original size:20 final size:20
Alignment explanation
Indices: 1315262--1315369 Score: 162
Period size: 20 Copynumber: 5.4 Consensus size: 20
1315252 GAAATTCAGT
*
1315262 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
1315282 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
1315302 GTTGCGATAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
*
1315322 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
* *
1315342 ATTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
1315362 GTTGCGAT
1 GTTGCGAT
1315370 TTACATATTC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1315382 original size:40 final size:40
Alignment explanation
Indices: 1315263--1315388 Score: 164
Period size: 40 Copynumber: 3.1 Consensus size: 40
1315253 AAATTCAGTG
* * * *
1315263 TTGCGACAGTCAGAATCGCGTTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCGTTGCGATAGTCATAATCGCA
*
1315303 TTGCGATAGTCAGAATCACGTTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATAGTCATAATCGCA
* * *
1315343 TTGCGATAGTCATAATCGCGTTGCGAT-TTACATATTCGCA
1 TTGCGATAGTCAGAATCGCGTTGCGATAGT-CATAATCGCA
1315383 TTGCGA
1 TTGCGA
1315389 ATTCGGAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (40 bp):
TTGCGATAGTCAGAATCGCGTTGCGATAGTCATAATCGCA
Found at i:1315387 original size:60 final size:59
Alignment explanation
Indices: 1315263--1315429 Score: 165
Period size: 60 Copynumber: 2.8 Consensus size: 59
1315253 AAATTCAGTG
* * * *
1315263 TTGCGACAGTCAGAATCGCGTTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCACG
1 TTGCGA-AGTCAAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCACA
* * * * * *
1315323 TTGCGATAGTCATAATCGCATTGCGATAGTCATAATCGCGTTGCGAT-TTACATATTCGCA
1 TTGCGA-AGTCAAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGT-CAGAATCACA
* * *
1315383 TTGCGAATTCGGAAAATCGCAATGCGATAGTCAGAACCGCGTTGCGA
1 TTGCGAAGTC--AAAATCGCATTGCGATAGTCAGAATCGCGTTGCGA
1315430 ATCTGTAAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
59 4 0.04
60 54 0.61
61 31 0.35
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (59 bp):
TTGCGAAGTCAAAATCGCATTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCACA
Found at i:1315652 original size:40 final size:40
Alignment explanation
Indices: 1315604--1315751 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
1315594 GGGATAACGT
*
1315604 TTAGTGGGAGGGATTTTAATATAAAAAGTTAGATTGAGGC
1 TTAGTGGGAGGGATTTTAATATAAAAAGTGAGATTGAGGC
* * * **
1315644 TTAGTGGGAAGGTTTTTAATATAAAAA-TGAGGTTGTTGC
1 TTAGTGGGAGGGATTTTAATATAAAAAGTGAGATTGAGGC
** ** * *
1315683 TTAGTGTAAGGGATTTTAATATTAAAAAAAGGGATT-ATGAC
1 TTAGTGGGAGGGATTTTAATA-TAAAAAGTGAGATTGA-GGC
*
1315724 TTAGTGAGAGGGATTTTAATATAAAAAG
1 TTAGTGGGAGGGATTTTAATATAAAAAG
1315752 ATGGGGGTTG
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
39 25 0.29
40 37 0.43
41 24 0.28
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (40 bp):
TTAGTGGGAGGGATTTTAATATAAAAAGTGAGATTGAGGC
Found at i:1318609 original size:15 final size:17
Alignment explanation
Indices: 1318578--1318610 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1318568 ACGGAAAAGT
1318578 TCTACAATCTGCTGAGC
1 TCTACAATCTGCTGAGC
1318595 TCTACAAT-T-CTGAGC
1 TCTACAATCTGCTGAGC
1318610 T
1 T
1318611 TGGTACTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (17 bp):
TCTACAATCTGCTGAGC
Found at i:1320344 original size:71 final size:70
Alignment explanation
Indices: 1320228--1320362 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 70
1320218 CGTCATCAAT
* * * *
1320228 TATTTTTTTATTAAGTTAAAGTGATTATAAAATATATATGTTCTAAATATTTTAAACCATTTGAT
1 TATTTTTTTATTAAATTAAAGTGATTACAAAATATATA-GTTCTAAATACTCTAAACCATTTGAT
1320293 AACGGA
65 AACGGA
* *
1320299 TATTTTTTTATTAAATTAAAGTGATTACAAAGAGTATATA-TTCTAATTACTCTCAACCATTTGA
1 TATTTTTTTATTAAATTAAAGTGATTACAAA-A-TATATAGTTCTAAATACTCTAAACCATTTGA
1320363 CAATAAAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 49 0.88
72 1 0.02
73 6 0.11
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (70 bp):
TATTTTTTTATTAAATTAAAGTGATTACAAAATATATAGTTCTAAATACTCTAAACCATTTGATA
ACGGA
Found at i:1328401 original size:3 final size:3
Alignment explanation
Indices: 1328395--1328438 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
1328385 TTTTATAATA
*
1328395 ATT ATT ATT ATT ATT ATT ATT A-T ATT -TAT ATT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT
1328439 TTACGTAGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 3 0.08
3 32 0.89
4 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:1333556 original size:11 final size:11
Alignment explanation
Indices: 1333540--1333564 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1333530 AGGAAAGGCA
1333540 GGTTAATATAC
1 GGTTAATATAC
1333551 GGTTAATATAC
1 GGTTAATATAC
1333562 GGT
1 GGT
1333565 ATTACCGGAT
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:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:1333997 original size:181 final size:182
Alignment explanation
Indices: 1333651--1334123 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 182
1333641 GATCCAAATT
* * * **
1333651 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
1333716 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTTGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
1333781 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTTGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
1333833 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
1333898 AAACCGGTAAAACGTTACCGGATATATTGAAAGTATCGATACTTT-ATATAATGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1333962 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
1334014 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
1334079 AAACTGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1334124 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 166 0.63
182 96 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:1334067 original size:20 final size:19
Alignment explanation
Indices: 1334044--1334090 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1334034 CGATATAACA
1334044 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
1334064 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
1334084 GGTAAAA
1 GGTAAAA
1334091 CGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1336323 original size:21 final size:21
Alignment explanation
Indices: 1336297--1336361 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1336287 AAGACAATCA
*
1336297 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1336318 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1336339 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1336360 AG
1 AG
1336362 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1336437 original size:33 final size:33
Alignment explanation
Indices: 1336395--1336460 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1336385 AAATAGATGG
*
1336395 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1336428 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1336461 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1338276 original size:19 final size:19
Alignment explanation
Indices: 1338252--1338300 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1338242 AATGTAGGGT
1338252 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1338271 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1338290 TAATTTTGTAT
1 TAATTTTGTAT
1338301 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1339167 original size:200 final size:200
Alignment explanation
Indices: 1338534--1339494 Score: 1671
Period size: 200 Copynumber: 4.8 Consensus size: 200
1338524 AATTTACAAT
* * * *
1338534 ATGGCAAACAGGGTACAACCATAAAGTGTTGATCCATATATAAAAAATGTCGAT-CCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1338598 CGAAA-CCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCAATTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1338662 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1338727 AATGA
196 AATGA
* *
1338732 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1338797 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACC-AGTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGA-TTT
*
1338861 TATGAG-GGATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
1338925 GAATGA
195 GAATGA
* *
1338931 ATGGCAAACAGGGTACAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1338996 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1339061 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1339126 AATGA
196 AATGA
1339131 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1339196 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
*
1339261 ATAAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1339326 AATGA
196 AATGA
*
1339331 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
1339396 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
* * *
1339461 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
1339495 GTTTAATGTT
Statistics
Matches: 733, Mismatches: 24, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
198 49 0.07
199 209 0.29
200 472 0.64
201 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:1339512 original size:399 final size:399
Alignment explanation
Indices: 1338534--1339494 Score: 1712
Period size: 399 Copynumber: 2.4 Consensus size: 399
1338524 AATTTACAAT
* *
1338534 ATGGCAAACAGGGTACAACCATAAAGTGTTGATCCATATATAAAAAATGTCGAT-CCATAAACAT
1 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
1338598 CGAAA-CCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCAATTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1338662 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
* *
1338727 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCGATA
196 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
1338792 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCA
261 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCA
* *
1338857 GTTTTATGAGGGATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
326 GTTTTATAAGGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
1338922 CCAGAATGA
391 CCAGAATGA
* *
1338931 ATGGCAAACAGGGTACAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1338996 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1339061 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1339126 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
196 AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
*
1339191 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCG
261 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCA
1339256 GTTTTATAAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
326 GTTTTATAAG-GAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGG
1339321 TCCAGAATGA
390 TCCAGAATGA
*
1339331 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1339396 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
* * *
1339461 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
1339495 GTTTAATGTT
Statistics
Matches: 538, Mismatches: 22, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
397 51 0.09
398 14 0.03
399 257 0.48
400 213 0.40
401 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (399 bp):
ATGGCAAACAGGGTACAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGAATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATA
AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCA
GTTTTATAAGGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGT
CCAGAATGA
Found at i:1341007 original size:12 final size:12
Alignment explanation
Indices: 1340985--1341042 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
1340975 CAAGCGGTCA
*
1340985 ATGAAGATGAAG
1 ATGACGATGAAG
*
1340997 CTGACGATGAAG
1 ATGACGATGAAG
*
1341009 ATGACGATGATG
1 ATGACGATGAAG
* *
1341021 ATGATGATGATG
1 ATGACGATGAAG
*
1341033 ATGATGATGA
1 ATGACGATGA
1341043 TCCAAACAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.24
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1341022 original size:3 final size:3
Alignment explanation
Indices: 1341002--1341043 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
1340992 TGAAGCTGAC
* *
1341002 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1341044 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.33, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1342593 original size:183 final size:183
Alignment explanation
Indices: 1342251--1342821 Score: 984
Period size: 183 Copynumber: 3.1 Consensus size: 183
1342241 ACAAATTTTC
* * *
1342251 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAAAATGGAAGAAAAATGTGTTGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
1342316 CAAAAAGTATCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
1342379 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1342435 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1342500 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
* *
1342565 AACCGGTATAAGTATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1342618 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1342683 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAAATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
* *
1342748 AATCAGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1342801 ACACTTTTTAATATTGTGTCG
1 ACACTTTTTAATATTGTGTCG
1342822 CTAATTTTAA
Statistics
Matches: 368, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
183 292 0.79
184 73 0.20
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
AATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1346275 original size:87 final size:87
Alignment explanation
Indices: 1346173--1346331 Score: 282
Period size: 87 Copynumber: 1.8 Consensus size: 87
1346163 AGGTCAATAT
1346173 AAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1 AAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1346238 TTAAATACCTATTTTATTATAC
66 TTAAATACCTATTTTATTATAC
* * * *
1346260 AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTTATAATATTTCCGG
1 AAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1346325 TTAAATA
66 TTAAATA
1346332 ATATAACATA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (87 bp):
AAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCCG
TTAAATACCTATTTTATTATAC
Found at i:1351297 original size:35 final size:34
Alignment explanation
Indices: 1351212--1351298 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1351202 AATATAATTT
*
1351212 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
1351246 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
1351284 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1351299 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:1353555 original size:17 final size:18
Alignment explanation
Indices: 1353512--1353552 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1353502 GAATTATATT
1353512 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
1353529 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
1353547 ATTAAA
1 AGTAAA
1353553 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:1353613 original size:10 final size:10
Alignment explanation
Indices: 1353594--1353624 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1353584 CTTAAACGGA
*
1353594 GAGAGTATTT
1 GAGAGAATTT
1353604 GAGAGAATTT
1 GAGAGAATTT
1353614 GAGAGAATTT
1 GAGAGAATTT
1353624 G
1 G
1353625 GGGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:1353823 original size:50 final size:51
Alignment explanation
Indices: 1353769--1353867 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
1353759 CAGGGGCCTC
** * *
1353769 GCTATA-CCCACGT-ATAACCATGTCAGCGTATAGCGCGGGGCAGGGGGTAA
1 GCTATACCCCACGTAAT-ACCAAATCAGCATAAAGCGCGGGGCAGGGGGTAA
*
1353819 GCTATACCCCACGTAATGCCAAATCAGCATAAAGCGCGGGGCAGGGGGT
1 GCTATACCCCACGTAATACCAAATCAGCATAAAGCGCGGGGCAGGGGGT
1353868 GCGTTTTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 6 0.14
51 34 0.81
52 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.16
Consensus pattern (51 bp):
GCTATACCCCACGTAATACCAAATCAGCATAAAGCGCGGGGCAGGGGGTAA
Found at i:1354626 original size:182 final size:181
Alignment explanation
Indices: 1354306--1354954 Score: 718
Period size: 182 Copynumber: 3.6 Consensus size: 181
1354296 GATACAAATG
* * * * * * **
1354306 AAAAATGTATCGCTCCATAGCAATATAAAAGGTAAAAATATGATAAAACGGTTTCA--TTATGAT
1 AAAAATGTATCGATCCATAACAATATAATAGGT-AAAATATGACAAAACCG-ATCACGAAATGAT
** * * * * *
1354369 AAAACCGGTAAACCGCTACTGGATATATCGAAAGTATTGATTAGATTTAA-ATAAGTATCGACAC
64 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGA-TA-AATTAATATAAGTATCGACAC
* * * *
1354433 TTTTGGAATTTAAAAGACAAGAAGTAATAGCGTCAATAAAGTGTCGATACTTTAT
127 TTTTCGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT
* * * *
1354488 AAAAACGTATCGATCCATAACAATATAACAGTTATAAGTATGACAAAACCGATCACGAAATGATA
1 AAAAATGTATCGATCCATAACAATATAATAGGTA-AAATATGACAAAACCGATCACGAAATGATA
* * ** * *
1354553 AAACCGATAAAGAGTTACCGGATATATTGAAAGTGTCGATACGTTATTATAAGCATCGACACTTT
65 AAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTT
* * *
1354618 TTGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAT
130 TCGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT
* * * * * *
1354670 ACAAATGTATCGATCCATAGCAATATAATAGGTAAGAATATGAAAAAACAGGTCTC-AGAATGAT
1 AAAAATGTATCGATCCATAACAATATAATAGGTAA-AATATGACAAAACCGATCACGA-AATGAT
* * *
1354734 AAAAGCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGATA-TT
64 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTT
*
1354798 TTCGTAATTTAAAAGAGAAGAAGTTATAGCGCCTAA-AAAGTATCGATACTTTAT
129 TTCG-AATTTAAAAGAGAAGAAGTTATAGCGCC-AATAAAGTGTCGATACTTTAT
* *
1354852 GAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGACAAAACCGAT-ATCGAAATGAC
1 AAAAATGTATCGATCCATAACAATATAATAGGT-AAAATATGACAAAACCGATCA-CGAAATGAT
* * * *
1354916 AAAACCGGTAAAGCGCTACCAGTTATGTTGAAAGTGTCG
64 AAAACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCG
1354955 GTACTTTAAT
Statistics
Matches: 390, Mismatches: 66, Indels: 22
0.82 0.14 0.05
Matches are distributed among these distances:
181 14 0.04
182 335 0.86
183 41 0.11
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACAATATAATAGGTAAAATATGACAAAACCGATCACGAAATGATAA
AACCGGTAAAGAGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
CGAATTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTAT
Found at i:1357540 original size:18 final size:18
Alignment explanation
Indices: 1357517--1357555 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1357507 GAGAAAATTT
1357517 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1357535 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
1357553 GAA
1 GAA
1357556 ATGAGGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:1359008 original size:19 final size:19
Alignment explanation
Indices: 1358984--1359033 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1358974 AAATGTAGGA
1358984 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
1359003 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
1359022 ATAATTTTGTAT
1 TTAATTTTGTAT
1359034 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:1361043 original size:29 final size:29
Alignment explanation
Indices: 1360973--1361047 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
1360963 CACATTCGAA
* * **
1360973 AATTCTCGAAATTTCATTTTTTTCAAAAT
1 AATTCCCGAAATGTCACATTTTTCAAAAT
* *
1361002 AATT-CCTAGAATGTCACATTTTTCACAAT
1 AATTCCCGA-AATGTCACATTTTTCAAAAT
1361031 AATTCCCGAAATGTCAC
1 AATTCCCGAAATGTCAC
1361048 CGGGTCGGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.05
29 32 0.86
30 3 0.08
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (29 bp):
AATTCCCGAAATGTCACATTTTTCAAAAT
Found at i:1361082 original size:17 final size:17
Alignment explanation
Indices: 1361043--1361110 Score: 91
Period size: 17 Copynumber: 3.9 Consensus size: 17
1361033 TTCCCGAAAT
* *
1361043 GTCACCGGGTCGGGTCGG
1 GTCAACGGGTCAGGTC-G
1361061 GTCAACGGGTCAGGTCG
1 GTCAACGGGTCAGGTCG
*
1361078 GTCAACGGGTCAGGCCG
1 GTCAACGGGTCAGGTCG
*
1361095 GTCAACGGGTCGGGTC
1 GTCAACGGGTCAGGTC
1361111 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 31 0.69
18 14 0.31
ACGTcount: A:0.13, C:0.26, G:0.44, T:0.16
Consensus pattern (17 bp):
GTCAACGGGTCAGGTCG
Found at i:1368460 original size:29 final size:29
Alignment explanation
Indices: 1368390--1368465 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
1368380 CACAATCGAA
* **
1368390 AATTCCCGAAATGACATTTTTTTCAAAAT
1 AATTCCCGAAATGTCACCTTTTTCAAAAT
* *
1368419 AATT-CCTATAATGTCACCTTTTTCACAAT
1 AATTCCCGA-AATGTCACCTTTTTCAAAAT
1368448 AATTCCCGAAATGTCACC
1 AATTCCCGAAATGTCACC
1368466 GGGTCGGGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 33 0.85
30 3 0.08
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (29 bp):
AATTCCCGAAATGTCACCTTTTTCAAAAT
Found at i:1369585 original size:198 final size:198
Alignment explanation
Indices: 1369248--1369813 Score: 989
Period size: 198 Copynumber: 2.9 Consensus size: 198
1369238 GGTTGTTACA
*
1369248 GTGTCGATACATTAATAAAAAGTATCGAT-CCAAAAACATTGAGACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATTGAGACCCATAATTATAATGTAATA
*
1369312 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
1369377 TCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGTGCATGGA
131 TCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGTGCATGGA
1369442 AAT
196 AAT
* *
1369445 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATTGAGACCCATAATTATAATGTAATA
1369510 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
*
1369575 TCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATGGA
131 TCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGTGCATGGA
1369640 AAT
196 AAT
* *
1369643 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAA-ATTGATATCCATAATTAT-ATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATTGAGACCCATAATTATAATGTAATA
* *
1369706 GGTAAATTATTAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTA
66 GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
*
1369771 TCAACACTCT-TTGAATTTGTGTCGATACGTTT-TGTCCAGAATG
131 TCGACACT-TATTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG
1369814 TAAATGGTCA
Statistics
Matches: 354, Mismatches: 12, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
196 106 0.30
197 47 0.13
198 201 0.57
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATTGAGACCCATAATTATAATGTAATA
GGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAGTA
TCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGTGCATGGA
AAT
Found at i:1369988 original size:394 final size:395
Alignment explanation
Indices: 1369248--1369996 Score: 995
Period size: 394 Copynumber: 1.9 Consensus size: 395
1369238 GGTTGTTACA
1369248 GTGTCGATACATTAATAAAAAGTATCGATCCAAAAACATTGAGACCCATAATTATAATGTAATAG
1 GTGTCGATACATTAATAAAAAGTATCGATCCAAAAACATTGAGACCCATAATTATAATGTAATAG
*
1369313 GTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAAGTGTACATAAAGTAT
66 GTAAATTATGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAAGTGTACATAAAGTAT
* * * ***
1369378 CGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCATACCAAGTGCATGGAA
131 CAACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATGTCCATACAAAGTGCACAAAA
* * *
1369443 ATGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATATAA
196 AAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATATAA
* * *
1369508 TAGGTAAATTATGAATCTAACCGGTCTAAATACACCGGTTTATGAGAAAACAGGTGTACATAAAG
261 TAGGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACAGGTGCACATAAAG
*
1369573 TATCGACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATG
326 TATCGACACTTATTAAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATG
1369638 GAAAT
391 GAAAT
* * *
1369643 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAA-ATTGATATCCATAATTAT-ATGTAATA
1 GTGTCGATACATTAATAAAAAGTATCGAT-CCAAAAACATTGAGACCCATAATTATAATGTAATA
* *
1369706 GGTAAATTATTAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAGGTGTACATAAAGTA
65 GGTAAATTATGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAAGTGTACATAAAGTA
1369771 TCAACACTCT-TTGAATTTGTGTCGATACGTTT-TGTCCAGAATGTAAATGGT-CA-A-AAAGTG
130 TCAACACT-TATTGAATTTGTGTCGATAC-TTTGTGTCCAGAATG---AT-GTCCATACAAAGTG
* **
1369831 CACAAAAAAGTGTCGATACATTTATAAAAAGTATCAAT-CCTAAAACAAT-GAAATTCATAATT-
189 CACAAAAAAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAAC-ATCGAAACCCATAATTA
* * * * * * * **
1369893 TGAATGTAATAGGT-CATTTTGTAATGTAATCGGTATAAATATACCTATTTAATTTG-AAACAGG
253 T-AATATAATAGGTAAATTATG-AATCTAACCGGTATAAATACACCGATTT-ATGAGAAAACAGG
*
1369956 T-CACCATAATGTATCGACACATT-TTAAATTTGTGTCGATAC
315 TGCA-CATAAAGTATCGACAC-TTATTAAATTTGTGTCGATAC
1369997 ATTTTTAAAT
Statistics
Matches: 309, Mismatches: 32, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
393 7 0.02
394 196 0.63
395 93 0.30
396 8 0.03
397 4 0.01
398 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (395 bp):
GTGTCGATACATTAATAAAAAGTATCGATCCAAAAACATTGAGACCCATAATTATAATGTAATAG
GTAAATTATGAATCTAACCGGTCTAAATACACCGATTTATGAGAAAACAAGTGTACATAAAGTAT
CAACACTTATTGAATTTGTGTCGATACTTTGTGTCCAGAATGATGTCCATACAAAGTGCACAAAA
AAGTGTCGATACATTTATAAAAAGTATCAATCCCAAAAACATCGAAACCCATAATTATAATATAA
TAGGTAAATTATGAATCTAACCGGTATAAATACACCGATTTATGAGAAAACAGGTGCACATAAAG
TATCGACACTTATTAAATTTGTGTCGATACTTTGTGTCCAGAATGATTTCCTTACCAAGTGCATG
GAAAT
Found at i:1370310 original size:15 final size:15
Alignment explanation
Indices: 1370290--1370340 Score: 86
Period size: 15 Copynumber: 3.4 Consensus size: 15
1370280 GAATCGGGGT
1370290 TCTTCTCAACCCATC
1 TCTTCTCAACCCATC
1370305 TCTTCTCAACCCA-C
1 TCTTCTCAACCCATC
1370319 ATCTTCTCAACCCATC
1 -TCTTCTCAACCCATC
1370335 TCTTCT
1 TCTTCT
1370341 GAGGAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.20, C:0.45, G:0.00, T:0.35
Consensus pattern (15 bp):
TCTTCTCAACCCATC
Found at i:1371509 original size:6 final size:6
Alignment explanation
Indices: 1371475--1371508 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1371465 CAAGCGGTCA
* *
1371475 ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
1371509 TCCAAACAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.32, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:1373576 original size:201 final size:201
Alignment explanation
Indices: 1373006--1373831 Score: 936
Period size: 198 Copynumber: 4.1 Consensus size: 201
1372996 AATGAATTTG
* * * *
1373006 CTTTATTCATTCGTGTCGATACATGTAGTCCAGAATGTA-TTTCCAAACCAAGTGCATGAACAAA
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTTCCAAA-CAAGTGCACGAAAAAA
* *
1373070 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAGACCCATAATTATAATGTAATA
65 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
1373135 GGTAAAATAACAATGTAATCGGTCTAAATATACCGG-TTTATGAGAAAAGAGGTATACATAAAGT
130 GGTAACATAACAATGTAACCGGTCTAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGT
1373199 ATCGACA
195 ATCGACA
* * * * *
1373206 CTTTATACATTTGTGTCGATACTTTTTGTCCATAATGTATTTTCCAACCAAAACAAGTTCAC-AA
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTT----CC-AAACAAGTGCACGAA
* * ** ** * **
1373270 ATAAGTGTTGATACATTTATATCAAGTGTCGATCCCAAAAACATCGAAACCTGTAACTATAACAT
61 AAAAGTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * * * * * *
1373335 AATAGGTCACTTTACAATGTAACCGATTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-A
126 AATAGGTAACATAACAATGTAACCGGTCTAAATATACCGGTTTTATGAGAAAATAGGTATACATA
1373399 TATGTATCGACA
191 -ATGTATCGACA
1373411 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTA-TTTCCAAATCAAGTGCACGAAAAAA
1 CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTTCCAAA-CAAGTGCACGAAAAAA
* * *
1373475 GTGTCGATACATTTATAACAAGCGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATA
65 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
1373540 GGTAACATAACAATGTAACCGGTCTAAATATACCGGTTATTA--A-AAAAAAGGTATAAATAATG
130 GGTAACATAACAATGTAACCGGTCTAAATATACCGGTT-TTATGAGAAAATAGGTATACATAATG
* *
1373602 TATTGATA
194 TATCGACA
* * * * ** * * *
1373610 CTTTATACATTTGTGTCGACAC-TTTATGTCCATAATAAATTTTCGAAAAAAGTTCACG-AAAAA
1 CTTTATTCATTTGTGTCGATACATGT-TGTCCAGAATGTATTTTCCAAACAAGTGCACGAAAAAA
* * * *
1373673 GTGTCGATACATTTAGAAAAAGTGTAGATCCTAAAAACATCGAAACCCGTAATTATAATGTAATA
65 GTGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * * * * *
1373738 GGCCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGT
130 GGTAACATAACAATGTAACCGGTCTAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGT
1373803 ATCGACA
195 ATCGACA
* *
1373810 CTTT-TTAAATTAGTGTCGATAC
1 CTTTATT-CATTTGTGTCGATAC
1373832 TTTTTAAAAT
Statistics
Matches: 520, Mismatches: 88, Indels: 36
0.81 0.14 0.06
Matches are distributed among these distances:
197 3 0.01
198 97 0.19
199 63 0.12
200 90 0.17
201 96 0.18
202 3 0.01
204 91 0.17
205 74 0.14
206 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (201 bp):
CTTTATTCATTTGTGTCGATACATGTTGTCCAGAATGTATTTTCCAAACAAGTGCACGAAAAAAG
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAACATAACAATGTAACCGGTCTAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGTA
TCGACA
Found at i:1386901 original size:23 final size:23
Alignment explanation
Indices: 1386851--1386895 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1386841 TGTCTATTTT
*
1386851 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
*
1386874 ATTATATAAGCGCTACCTAATA
1 ATTATATAAACGCTACCTAATA
1386896 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:1388567 original size:21 final size:22
Alignment explanation
Indices: 1388542--1388583 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1388532 GCATAAATAT
1388542 GAAAATAAT-AAATAAAAAAAG
1 GAAAATAATAAAATAAAAAAAG
1388563 GAAAATAATGAAAATAAAAAA
1 GAAAATAAT-AAAATAAAAAA
1388584 CAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (22 bp):
GAAAATAATAAAATAAAAAAAG
Found at i:1388597 original size:21 final size:22
Alignment explanation
Indices: 1388543--1388598 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1388533 CATAAATATG
*
1388543 AAAATAAT-AAATAAAAAAAGG
1 AAAATAATAAAATAAAAAAAGC
1388564 AAAATAATGAAAAT-AAAAAA-C
1 AAAATAAT-AAAATAAAAAAAGC
1388585 AAAATAAATAAAAT
1 AAAAT-AATAAAAT
1388599 GGTAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 18 0.58
22 9 0.29
23 4 0.13
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (22 bp):
AAAATAATAAAATAAAAAAAGC
Found at i:1388598 original size:30 final size:29
Alignment explanation
Indices: 1388536--1388635 Score: 75
Period size: 30 Copynumber: 3.5 Consensus size: 29
1388526 AGAATTGCAT
* *
1388536 AAAT-ATGAAAATAATAAATAAAA-AAAGGA
1 AAATAATGAAAATAA-AAAAAAAATAAA-TA
1388565 AAATAATGAAAATAAAAAACAAAATAAATA
1 AAATAATGAAAATAAAAAA-AAAATAAATA
** *
1388595 AAATGGT-AAAAT-AAAAATAAAT-AATAA
1 AAATAATGAAAATAAAAAAAAAATAAAT-A
*
1388622 AAATAATAAAAATA
1 AAATAATGAAAATA
1388636 TGATAATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.05
27 10 0.17
28 10 0.17
29 12 0.21
30 20 0.34
31 3 0.05
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (29 bp):
AAATAATGAAAATAAAAAAAAAATAAATA
Found at i:1388629 original size:3 final size:3
Alignment explanation
Indices: 1388604--1388665 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
1388594 AAAATGGTAA
* * * *
1388604 AAT AAA AAT AAAT AAT AAA AAT AAT AAA AAT -AT GAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1388649 AAT AACT -AT AAT AAT AA
1 AAT AA-T AAT AAT AAT AA
1388666 GAAACCAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 3 0.06
3 41 0.85
4 4 0.08
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1388633 original size:23 final size:23
Alignment explanation
Indices: 1388604--1388665 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
1388594 AAAATGGTAA
1388604 AATAAAAATA-AATAATAAAAAT
1 AATAAAAATATAATAATAAAAAT
* *
1388626 AATAAAAATATGATAATAATAAT
1 AATAAAAATATAATAATAAAAAT
*
1388649 AAT--AACTATAATAATAA
1 AATAAAAATATAATAATAA
1388666 GAAACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.34
22 10 0.29
23 13 0.37
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAAAAATATAATAATAAAAAT
Found at i:1389715 original size:20 final size:20
Alignment explanation
Indices: 1389690--1389738 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1389680 TCGGGTACGG
*
1389690 ATACCCCCTCCCCCATCCCC
1 ATACCCACTCCCCCATCCCC
1389710 ATACCCACTCCCCCATCCCC
1 ATACCCACTCCCCCATCCCC
1389730 ATACCCACT
1 ATACCCACT
1389739 TAATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.63, G:0.00, T:0.16
Consensus pattern (20 bp):
ATACCCACTCCCCCATCCCC
Found at i:1390630 original size:17 final size:16
Alignment explanation
Indices: 1390587--1390636 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
1390577 TTGGACCCTG
1390587 AAAATAA-AATAAATAA
1 AAAATAATAATAAA-AA
**
1390603 AAAATGTTAATAAAAA
1 AAAATAATAATAAAAA
1390619 AATAATAATAATAAAAA
1 AA-AATAATAATAAAAA
1390636 A
1 A
1390637 TATTTCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAATAATAAAAA
Found at i:1390698 original size:37 final size:35
Alignment explanation
Indices: 1390633--1390960 Score: 221
Period size: 37 Copynumber: 8.9 Consensus size: 35
1390623 ATAATAATAA
* *
1390633 AAAATATTTCCAAAAACTATATAATATATATATTTTTT
1 AAAATATTT-TAAAAA-TATATATTATATA-ATTTTTT
**
1390671 AAAATATTTTAAAAGATATATATTATAT-ATTTTAA
1 AAAATATTTTAAAA-ATATATATTATATAATTTTTT
* * * **
1390706 AAAATGTTTTCAAAATTATATATTATATACTTTTCA
1 AAAATATTTT-AAAAATATATATTATATAATTTTTT
* * * * **
1390742 AAAACATTTTAAAACTATATATTGTAT-GTTTTCAA
1 AAAATATTTTAAAAATATATATTATATAATTTT-TT
* * *
1390777 AAAATATTTTTTAAGACTATATATTATATAAGTTTTTC
1 AAAATA--TTTTAAAAATATATATTATATAA-TTTTTT
* * * * * *
1390815 AAAATGGTTTCAAAATTACATATTAAATAAATTTTT
1 AAAAT-ATTTTAAAAATATATATTATATAATTTTTT
* * *
1390851 AAAATTGATTTCAAAACTATATATTATATAAATTTTT
1 AAAA-T-ATTTTAAAAATATATATTATATAATTTTTT
1390888 AAAATATTTTAAAAAACTATATATTATAT-ATATTTTT
1 AAAATATTTT-AAAAA-TATATATTATATAAT-TTTTT
*
1390925 AAAATATTTTCAAAAACTATATAATATATACATTTT
1 AAAATATTTT-AAAAA-TATATATTATATA-ATTTT
1390961 CAAAAATCAT
Statistics
Matches: 238, Mismatches: 37, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
34 4 0.02
35 51 0.21
36 31 0.13
37 128 0.54
38 18 0.08
39 6 0.03
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (35 bp):
AAAATATTTTAAAAATATATATTATATAATTTTTT
Found at i:1397559 original size:25 final size:25
Alignment explanation
Indices: 1397523--1397578 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
1397513 GGTATTGACA
1397523 TCCATTCATTTTGCATCCCCATATC
1 TCCATTCATTTTGCATCCCCATATC
* *
1397548 TGCATTCGTTTTGCATCCCCATATC
1 TCCATTCATTTTGCATCCCCATATC
1397573 TCCATT
1 TCCATT
1397579 GTCAGTCTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.18, C:0.34, G:0.07, T:0.41
Consensus pattern (25 bp):
TCCATTCATTTTGCATCCCCATATC
Found at i:1400248 original size:60 final size:59
Alignment explanation
Indices: 1400173--1400353 Score: 181
Period size: 60 Copynumber: 3.1 Consensus size: 59
1400163 TATTTAGATG
* * * * *
1400173 AATTTGGAGATGAAATTGAAATATCTAAAAGTTCATGGACCAATTTATAATGAGATTCAT
1 AATTTGGGGATGAAATTGAAATAT-TAAAAGTTTAAGGACCAATTTAAAATGAGAGTCAT
* * * * *
1400233 AGTTTGGGGATGAAATTTG-AATGTTCAAAAGTTTAAGAACTAATTTAGAATGAGAGTCAT
1 AATTTGGGGATGAAA-TTGAAATATT-AAAAGTTTAAGGACCAATTTAAAATGAGAGTCAT
** * *
1400293 AATTTAAGGAAGAAATTGAAATATTTAAAGTTTAAGGACCAA-TTAAAAT--GAGTCAT
1 AATTTGGGGATGAAATTGAAATATTAAAAGTTTAAGGACCAATTTAAAATGAGAGTCAT
1400349 AATTT
1 AATTT
1400354 AGGCACATAT
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
56 12 0.12
58 6 0.06
59 18 0.18
60 61 0.61
61 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (59 bp):
AATTTGGGGATGAAATTGAAATATTAAAAGTTTAAGGACCAATTTAAAATGAGAGTCAT
Found at i:1400625 original size:26 final size:27
Alignment explanation
Indices: 1400595--1400659 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
1400585 ATTATCGATG
1400595 ATATAATAATATAATATCATTTA-T-AA
1 ATATAATAATATAATAT-ATTTATTCAA
*
1400621 ATAT-AT-TTATAATATATTTATTCAA
1 ATATAATAATATAATATATTTATTCAA
*
1400646 ACATAAATAATATA
1 ATAT-AATAATATA
1400660 TTTTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
23 5 0.16
24 9 0.29
25 7 0.23
26 4 0.13
27 2 0.06
28 4 0.13
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATAATAATATAATATATTTATTCAA
Found at i:1400636 original size:11 final size:11
Alignment explanation
Indices: 1400604--1400641 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
1400594 GATATAATAA
1400604 TATAATATCATT
1 TATAATAT-ATT
1400616 TATAAATATATT
1 TAT-AATATATT
1400628 TATAATATATT
1 TATAATATATT
1400639 TAT
1 TAT
1400642 TCAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 9 0.36
13 5 0.20
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
TATAATATATT
Found at i:1403958 original size:12 final size:13
Alignment explanation
Indices: 1403937--1403970 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1403927 TAAGATTTTC
1403937 TTTGAAAATCA-T
1 TTTGAAAATCAGT
*
1403949 TTTTAAAATCAGT
1 TTTGAAAATCAGT
1403962 TTTGAAAAT
1 TTTGAAAAT
1403971 TATTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTGAAAATCAGT
Found at i:1405732 original size:14 final size:14
Alignment explanation
Indices: 1405700--1405741 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1405690 AGTGAGCAAA
*
1405700 ATTTGAAAACT-AT
1 ATTTGAAAAATAAT
1405713 -TTTGAAAAATAAT
1 ATTTGAAAAATAAT
*
1405726 ATTTGAAAATTAAT
1 ATTTGAAAAATAAT
1405740 AT
1 AT
1405742 ATAGTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 14 0.56
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (14 bp):
ATTTGAAAAATAAT
Found at i:1406283 original size:44 final size:44
Alignment explanation
Indices: 1406210--1406319 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
1406200 AGTTTATCAG
* *
1406210 TACACTG-CAGAGTGTATCGATGCACATTCAAGGAATACATCGG
1 TACACTGTCAAAGTGTATCGATGCACATTCAAGGAATACATCGA
* * * * *
1406253 TGCACCT-TCATAGTGTATCGATGCATATTCAAGGGATGCATCGA
1 TACA-CTGTCAAAGTGTATCGATGCACATTCAAGGAATACATCGA
1406297 TACACTGTCAAAGTGTATCGATG
1 TACACTGTCAAAGTGTATCGATG
1406320 TATTGTGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 5 0.09
44 51 0.91
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TACACTGTCAAAGTGTATCGATGCACATTCAAGGAATACATCGA
Found at i:1409261 original size:46 final size:46
Alignment explanation
Indices: 1409210--1409316 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
1409200 GATGCACTCC
* *
1409210 CATGCATTGATGCACT-TGGAT-TTTATGAAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGATATTT-T-AAAAACATCGAATGCATTT
* * *
1409256 GATGCATCGATGCACTCAGGCTATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGATATTTTAAAAACATCGAATGCATTT
1409302 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1409317 ACTTGGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 46 0.87
47 4 0.08
48 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGATATTTTAAAAACATCGAATGCATTT
Found at i:1414768 original size:33 final size:32
Alignment explanation
Indices: 1414713--1414779 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 32
1414703 ACATCTGACA
** * *
1414713 ATACATCGATGCATTCCTTTGAATGTGCATCG
1 ATACATCGATGCACGCCCTTGAATATGCATCG
1414745 ATACATCTGATGCACGCCCTTGAATATGCATCG
1 ATACATC-GATGCACGCCCTTGAATATGCATCG
1414778 AT
1 AT
1414780 GCATAAGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 7 0.23
33 23 0.77
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (32 bp):
ATACATCGATGCACGCCCTTGAATATGCATCG
Found at i:1417447 original size:46 final size:46
Alignment explanation
Indices: 1417388--1417494 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 46
1417378 GATGCACTCC
*
1417388 CATGCATCGATGCACT-TGGAT-TTTATGAAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGATATTT-T-AAAAACATCGAATGCATTT
* * *
1417434 GATGCATCGATGCACTCAGGCTATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGGATATTTTAAAAACATCGAATGCATTT
1417480 CATGCATCGATGCAC
1 CATGCATCGATGCAC
1417495 ACTTGGTGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 47 0.87
47 4 0.07
48 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGATATTTTAAAAACATCGAATGCATTT
Found at i:1428747 original size:16 final size:16
Alignment explanation
Indices: 1428726--1428759 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1428716 TTTTTTACCA
1428726 ATTAATATTGAAATAT
1 ATTAATATTGAAATAT
*
1428742 ATTAATTTTGAAATAT
1 ATTAATATTGAAATAT
1428758 AT
1 AT
1428760 GGCAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTAATATTGAAATAT
Found at i:1441020 original size:15 final size:14
Alignment explanation
Indices: 1441000--1441031 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
1440990 CAATCCTGTG
1441000 AAAAAAGATAAACAA
1 AAAAAAGATAAA-AA
1441015 AAAAAAGATAAAAA
1 AAAAAAGATAAAAA
1441029 AAA
1 AAA
1441032 TCATAAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAGATAAAAA
Found at i:1441108 original size:20 final size:20
Alignment explanation
Indices: 1441080--1441120 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1441070 ATACAGAGAT
* *
1441080 AAATGTGTCATAAAGACATA
1 AAATATGTCACAAAGACATA
1441100 AAATATGTCACAAAGACATA
1 AAATATGTCACAAAGACATA
1441120 A
1 A
1441121 TTATTCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (20 bp):
AAATATGTCACAAAGACATA
Found at i:1443318 original size:24 final size:24
Alignment explanation
Indices: 1443286--1443333 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1443276 AAGTTAATGG
1443286 AGAAACACCTAAACAACATAGTTT
1 AGAAACACCTAAACAACATAGTTT
*
1443310 AGAAGCACCTAAACAACATAGTTT
1 AGAAACACCTAAACAACATAGTTT
1443334 CTTTCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (24 bp):
AGAAACACCTAAACAACATAGTTT
Found at i:1443363 original size:36 final size:36
Alignment explanation
Indices: 1443316--1443392 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
1443306 GTTTAGAAGC
1443316 ACCTAAACAACATAGTTTCTTTCTAAGTTGAACTTG
1 ACCTAAACAACATAGTTTCTTTCTAAGTTGAACTTG
*
1443352 ACCTAAACAACATAGTTTCTTTCTAAGTTGAGCTTG
1 ACCTAAACAACATAGTTTCTTTCTAAGTTGAACTTG
1443388 ACCTA
1 ACCTA
1443393 GGTATAGGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (36 bp):
ACCTAAACAACATAGTTTCTTTCTAAGTTGAACTTG
Found at i:1448418 original size:21 final size:21
Alignment explanation
Indices: 1448392--1448450 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
1448382 TTACAATGGT
*
1448392 TGTAGGAATTTCAGCAGTGGC
1 TGTAGGATTTTCAGCAGTGGC
*
1448413 TGTAGGATTTTCAGTAGTGGC
1 TGTAGGATTTTCAGCAGTGGC
*
1448434 TGTAGGATTTTTAGCAG
1 TGTAGGATTTTCAGCAG
1448451 GTTTTGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.36
Consensus pattern (21 bp):
TGTAGGATTTTCAGCAGTGGC
Found at i:1450346 original size:87 final size:87
Alignment explanation
Indices: 1450242--1450403 Score: 324
Period size: 87 Copynumber: 1.9 Consensus size: 87
1450232 TAGATTATGA
1450242 CTAATATTTACAAGGAAATTCCTAGAACTAAGGTAGAGAATCTCCTTAATTTAAGGATTTCCAAC
1 CTAATATTTACAAGGAAATTCCTAGAACTAAGGTAGAGAATCTCCTTAATTTAAGGATTTCCAAC
1450307 ATATAATGTGTTCACAGTGGTC
66 ATATAATGTGTTCACAGTGGTC
1450329 CTAATATTTACAAGGAAATTCCTAGAACTAAGGTAGAGAATCTCCTTAATTTAAGGATTTCCAAC
1 CTAATATTTACAAGGAAATTCCTAGAACTAAGGTAGAGAATCTCCTTAATTTAAGGATTTCCAAC
1450394 ATATAATGTG
66 ATATAATGTG
1450404 GTGTTCACAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (87 bp):
CTAATATTTACAAGGAAATTCCTAGAACTAAGGTAGAGAATCTCCTTAATTTAAGGATTTCCAAC
ATATAATGTGTTCACAGTGGTC
Found at i:1456844 original size:21 final size:22
Alignment explanation
Indices: 1456820--1456897 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 22
1456810 ATATTATTTC
1456820 ATTAAATTATTATAATT-TAAT
1 ATTAAATTATTATAATTATAAT
*
1456841 ATTAAA-TATTTTTAATTATAAT
1 ATTAAATTA-TTATAATTATAAT
**
1456863 -TTAATATTTATTAGTAATTATTTTT
1 ATTAA-A-TTATTA-TAATTA-TAAT
1456888 ATTAAATTAT
1 ATTAAATTAT
1456898 ATTGATGATT
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
20 2 0.04
21 17 0.38
22 5 0.11
23 2 0.04
24 12 0.27
25 3 0.07
26 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
ATTAAATTATTATAATTATAAT
Found at i:1456868 original size:20 final size:21
Alignment explanation
Indices: 1456832--1456871 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1456822 TAAATTATTA
1456832 TAATTTAATATTAAATATTTT
1 TAATTTAATATTAAATATTTT
1456853 TAATTATAAT-TT-AATATTT
1 TAATT-TAATATTAAATATTT
1456872 ATTAGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTTAATATTAAATATTTT
Found at i:1456895 original size:14 final size:15
Alignment explanation
Indices: 1456847--1456897 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
1456837 TAATATTAAA
1456847 TATTTTTAATTATAATT
1 TATTTTT-ATTATAA-T
*
1456864 TAATATTTATTAGTAAT
1 T-ATTTTTATTA-TAAT
1456881 TATTTTTATTA-AAT
1 TATTTTTATTATAAT
1456895 TAT
1 TAT
1456898 ATTGATGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.20
16 9 0.30
17 7 0.23
18 8 0.27
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTTTATTATAAT
Found at i:1456908 original size:23 final size:22
Alignment explanation
Indices: 1456881--1456940 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 22
1456871 TATTAGTAAT
1456881 TATTTT-TATTAAATTATATTGA
1 TATTTTATATTAAATTAT-TTGA
1456903 TGATTTATATATT--ATTATTTGA
1 T-ATTT-TATATTAAATTATTTGA
1456925 TATTATTATATTAAAT
1 TATT-TTATATTAAAT
1456941 ATAATTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
21 9 0.28
22 7 0.22
23 11 0.34
24 1 0.03
25 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TATTTTATATTAAATTATTTGA
Found at i:1456921 original size:21 final size:20
Alignment explanation
Indices: 1456886--1456937 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
1456876 GTAATTATTT
*
1456886 TTATTAAATTATA-TTGATGA
1 TTATTATATTATATTTGAT-A
1456906 TT-TATATATTATTATTTGATA
1 TTAT-TATATTA-TATTTGATA
1456927 TTATTATATTA
1 TTATTATATTA
1456938 AATATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 12 0.44
22 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
TTATTATATTATATTTGATA
Found at i:1457969 original size:230 final size:229
Alignment explanation
Indices: 1457567--1458063 Score: 904
Period size: 230 Copynumber: 2.2 Consensus size: 229
1457557 GTTATATTGT
* *
1457567 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
* * *
1457632 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATTAAA
66 TATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
* *
1457697 TAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTCTTTATGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1457762 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
1457796 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1457861 ATATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
65 ATATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
1457926 ATAATTCTTTATGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTCTTTATGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
1457991 AAGAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
1458026 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1458064 AAAAATAGGT
Statistics
Matches: 258, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
229 44 0.17
230 214 0.83
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
TATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTCTTTATGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1458365 original size:20 final size:19
Alignment explanation
Indices: 1458342--1458388 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
1458332 CGATATACCA
1458342 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1458362 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1458382 GGTAAAA
1 GGTAAAA
1458389 CGTTACAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1458465 original size:181 final size:182
Alignment explanation
Indices: 1458130--1458602 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
1458120 GATCCAAATT
* * * * *
1458130 AAAAATGTGTCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * ** *
1458194 AAAATCGGTAAAGCGCTACTGGATACATTTCAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACAGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
1458259 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
1458312 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
1458377 AAACCGGTAAAACGTTACAGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACAGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1458441 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
1458493 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
1458558 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACAGGATATATTAAAAGTGTCGATACTTT
1458603 CGAAAGTACG
Statistics
Matches: 262, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 168 0.64
182 94 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACAGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:1458546 original size:20 final size:19
Alignment explanation
Indices: 1458523--1458569 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1458513 CGATATAACA
1458523 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1458543 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1458563 GGTAAAA
1 GGTAAAA
1458570 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1458571 original size:17 final size:19
Alignment explanation
Indices: 1458532--1458574 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1458522 AGGTAAAAAT
1458532 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1458552 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1458569 ATGATA
1 ATGATA
1458575 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1460857 original size:21 final size:21
Alignment explanation
Indices: 1460794--1460858 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
1460784 AAGACAAACA
* *
1460794 AGAGTCGAAAAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
*
1460815 AGAGTCGAAGAGAAACTGGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1460836 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1460857 AG
1 AG
1460859 GCATAAGGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1460906 original size:15 final size:15
Alignment explanation
Indices: 1460886--1460918 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1460876 AAGGAAAAAT
1460886 AGATGGAGTGGTGAA
1 AGATGGAGTGGTGAA
1460901 AGATGGAGTGGTGAA
1 AGATGGAGTGGTGAA
1460916 AGA
1 AGA
1460919 AGTAGAGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.45, T:0.18
Consensus pattern (15 bp):
AGATGGAGTGGTGAA
Found at i:1460944 original size:33 final size:33
Alignment explanation
Indices: 1460907--1460972 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1460897 TGAAAGATGG
*
1460907 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1460940 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1460973 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1462785 original size:19 final size:19
Alignment explanation
Indices: 1462761--1462809 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1462751 AATGTAGGGT
1462761 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1462780 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1462799 TAATTTTGTAT
1 TAATTTTGTAT
1462810 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Done.