Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_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: 2010226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:1042143 original size:16 final size:16
Alignment explanation
Indices: 1042121--1042162 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1042111 ATGATATGAA
1042121 TTATATGAGA-ATATG
1 TTATATGAGATATATG
1042136 TATATATGA-ATATATG
1 T-TATATGAGATATATG
1042152 TT-TATGAGATA
1 TTATATGAGATA
1042163 CAACACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (16 bp):
TTATATGAGATATATG
Found at i:1042420 original size:18 final size:17
Alignment explanation
Indices: 1042392--1042428 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1042382 GGATATATGT
1042392 GATATGTGGTCCTTCGG
1 GATATGTGGTCCTTCGG
*
1042409 GATATAGTGGTCTTTCGG
1 GATAT-GTGGTCCTTCGG
1042427 GA
1 GA
1042429 CAAATTCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.16, C:0.14, G:0.35, T:0.35
Consensus pattern (17 bp):
GATATGTGGTCCTTCGG
Found at i:1043455 original size:70 final size:70
Alignment explanation
Indices: 1043338--1043475 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 70
1043328 TAGTAAACCA
* * * * *
1043338 TCCATTCTAGTTGAATCGAAAGTGTGATGCTTCCTTCCGTTCTACTTGAATCAAAAGTGCGATGC
1 TCCATTCGACTTGAATCAAAAGTGTGATGCTTCCTTCCGTTCAACTTGAATCAAAAGTACGATGC
1043403 TTCAT
66 TTCAT
* * *
1043408 TCCATTCGACTTGAATCAAAAGT-TCGATGTTTCCTTCCGTTCAACTTGAATCGAAAGTACGATT
1 TCCATTCGACTTGAATCAAAAGTGT-GATGCTTCCTTCCGTTCAACTTGAATCAAAAGTACGATG
1043472 CTTC
65 CTTC
1043476 CTTTTGTTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
69 1 0.02
70 58 0.98
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (70 bp):
TCCATTCGACTTGAATCAAAAGTGTGATGCTTCCTTCCGTTCAACTTGAATCAAAAGTACGATGC
TTCAT
Found at i:1043477 original size:35 final size:35
Alignment explanation
Indices: 1043348--1043478 Score: 163
Period size: 35 Copynumber: 3.7 Consensus size: 35
1043338 TCCATTCTAG
* * *
1043348 TTGAATCGAAAGTGTGATGCTTCCTTCCGTTCTAC
1 TTGAATCAAAAGTGCGATGCTTCCTTCCGTTCAAC
* * *
1043383 TTGAATCAAAAGTGCGATGCTTCATTCCATTCGAC
1 TTGAATCAAAAGTGCGATGCTTCCTTCCGTTCAAC
* *
1043418 TTGAATCAAAAGTTCGATGTTTCCTTCCGTTCAAC
1 TTGAATCAAAAGTGCGATGCTTCCTTCCGTTCAAC
* * *
1043453 TTGAATCGAAAGTACGATTCTTCCTT
1 TTGAATCAAAAGTGCGATGCTTCCTT
1043479 TTGTTCTATT
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 82 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (35 bp):
TTGAATCAAAAGTGCGATGCTTCCTTCCGTTCAAC
Found at i:1045317 original size:19 final size:19
Alignment explanation
Indices: 1045279--1045318 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1045269 ACCACACTCA
* *
1045279 ATGCACACATTAGCAGTGC
1 ATGCACACATTAACACTGC
*
1045298 ATGCACACGTTAACACTGC
1 ATGCACACATTAACACTGC
1045317 AT
1 AT
1045319 ATTCTAGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (19 bp):
ATGCACACATTAACACTGC
Found at i:1046354 original size:48 final size:46
Alignment explanation
Indices: 1046272--1046363 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 46
1046262 TATAAGTTGT
1046272 TATTATGACTAATAAATTTGTCACAAATTTTTATTTTGAAAAAAATA
1 TATTATGACTAATAAATTTG-CACAAATTTTTATTTTGAAAAAAATA
* * *
1046319 TATTGTGACTAAATAAATTTG-ACATGATTTCTTATTTTGACAAAA
1 TATTATGACT-AATAAATTTGCACA-AATTT-TTATTTTGAAAAAA
1046364 TTTAATATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
46 3 0.08
47 13 0.33
48 23 0.59
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (46 bp):
TATTATGACTAATAAATTTGCACAAATTTTTATTTTGAAAAAAATA
Found at i:1046374 original size:200 final size:200
Alignment explanation
Indices: 1045976--1046402 Score: 512
Period size: 200 Copynumber: 2.1 Consensus size: 200
1045966 AAAATTATTT
* * * * * * *
1045976 TTGTGATTAAGCAACTTTGGTACAATTTTTTATTGTGAAACAAAATGTTATTTAGCATAATTTTT
1 TTGTGAATAAACAAATTTGTTACAATTTGTTATTATGAAACAAAATATTATTTAGCATAATTTTT
*
1046041 TATATTGAAAAATTAATATTTATTAAAATGATTATTATGAATAAATAAAATTTTCATAATTTGTT
66 TATATTGAAAAATTAATATTTATTAAAATGATTATTATGAATAAATAAAATTTTCAAAATTTGTT
* * *
1046106 ATTTTGAGAAAATATTATGACCAAATAAATTTGACATAATTTCTTATTTTTGACTACATTTAATA
131 ATTTTGAAAAAATATTATGACCAAATAAATTTGACATAATTTCTTATTTTTGACAAAATTTAATA
1046171 TGTTA
196 TGTTA
*
1046176 TTGTGAATAAACAAATTTGTTACAATTTGTTATTATG-AA-AGAATATTATTT-GTCATAATTTT
1 TTGTGAATAAACAAATTTGTTACAATTTGTTATTATGAAACAAAATATTATTTAG-CATAATTTT
* * * * *
1046238 TTATATTGAGAAATTAGTATTTTTTATAAGTTG-TTATTATGACT-AAT-AAATTTGTCACAAAT
65 TTATATTGAAAAATTAATATTTATTA-AA-ATGATTATTATGAATAAATAAAATTT-TCA-AAAT
* * *
1046300 TT-TTATTTTGAAAAAAATATATTGTGACTAAATAAATTTGACATGATTTCTTA-TTTTGACAAA
126 TTGTTATTTTG--AAAAA-ATATTATGACCAAATAAATTTGACATAATTTCTTATTTTTGACAAA
1046363 ATTTAATATGTTA
188 ATTTAATATGTTA
* * *
1046376 TTCTGACTAAATAAATTTGTTA-AATTT
1 TTGTGAATAAACAAATTTGTTACAATTT
1046403 TTTTTACTAA
Statistics
Matches: 196, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
197 7 0.04
198 56 0.29
199 24 0.12
200 77 0.39
201 32 0.16
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (200 bp):
TTGTGAATAAACAAATTTGTTACAATTTGTTATTATGAAACAAAATATTATTTAGCATAATTTTT
TATATTGAAAAATTAATATTTATTAAAATGATTATTATGAATAAATAAAATTTTCAAAATTTGTT
ATTTTGAAAAAATATTATGACCAAATAAATTTGACATAATTTCTTATTTTTGACAAAATTTAATA
TGTTA
Found at i:1050514 original size:106 final size:106
Alignment explanation
Indices: 1050329--1050528 Score: 292
Period size: 106 Copynumber: 1.9 Consensus size: 106
1050319 AGCATTGTTC
* * * *
1050329 CGAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGCAAATTATTTGTTGACA
1 CGAGTCCAATATCCTCCGTCATGAAGTTGAAATTGACTCCGAAATCGGCAAATTATTTGTTGACA
*
1050394 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTATGTTGTCT
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCT
** * * * *
1050435 CGAGTCCAATATCCTTTGTTATGAAGTTGAAATTGACTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGTCATGAAGTTGAAATTGACTCCGAAATCGGCAAATTATTTGTTGACA
*
1050500 ACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 ACCAGCCGTCCCTTCGTCGTGAAGTTGAA
1050529 ATTGGCTCTG
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
106 82 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTCCGTCATGAAGTTGAAATTGACTCCGAAATCGGCAAATTATTTGTTGACA
ACCAGCCGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCT
Found at i:1050555 original size:63 final size:63
Alignment explanation
Indices: 1050456--1050591 Score: 236
Period size: 63 Copynumber: 2.2 Consensus size: 63
1050446 TCCTTTGTTA
*
1050456 TGAAGTTGAAATTGACTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1 TGAAGTTGAAATTGACTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
* * *
1050519 TGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1 TGAAGTTGAAATTGACTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
1050582 TGAAGTTGAA
1 TGAAGTTGAA
1050592 CTTGCGTTGT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (63 bp):
TGAAGTTGAAATTGACTCCGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCG
Found at i:1050631 original size:169 final size:169
Alignment explanation
Indices: 1050345--1050697 Score: 546
Period size: 169 Copynumber: 2.1 Consensus size: 169
1050335 CAATATCCTC
*
1050345 CGTCGTGAAGTTGAAATTGGCTCTGGAATCGGCAAATTATTTGTTGACAACCAGCCGTCCCTTCG
1 CGTCGTGAAGTTGAAATTGGCTCTGAAATCGGCAAATTATTTGTTGACAACCAGCCGTCCCTTCG
* * *
1050410 TTGTGAAGTTGAACTTATGTTGTCTCGAGTCCAATATCCTTTGTTATGAAGTTGAAATTGACTCC
66 TCGTGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGACTCC
*
1050475 GAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTT
131 GAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTT
* * * *
1050514 CGTCGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTGTTGACAACCAGCGGTCCCTTC
1 CGTCGTGAAGTTGAAATTGGCTCTGAAATCG-GCAAATTATTTGTTGACAACCAGCCGTCCCTTC
* * * * *
1050578 GTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTT
65 GTCGTGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGACTC
* *
1050643 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTT
130 CGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTT
1050683 CGTCGTGAAGTTGAA
1 CGTCGTGAAGTTGAA
1050698 CTTGCGTTGT
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
169 166 0.99
170 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (169 bp):
CGTCGTGAAGTTGAAATTGGCTCTGAAATCGGCAAATTATTTGTTGACAACCAGCCGTCCCTTCG
TCGTGAAGTTGAACTTACGTTGTCTCGAGTCCAATATCCTTCGTTATGAAGTTGAAATTGACTCC
GAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTT
Found at i:1051340 original size:106 final size:106
Alignment explanation
Indices: 1050510--1051336 Score: 1343
Period size: 106 Copynumber: 7.8 Consensus size: 106
1050500 ACCAGCGGTC
1050510 CCTTCG-TCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
1 CCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCC
1050574 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
65 CTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
1050616 CCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
1050681 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * *
1050722 CCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
1050787 TTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * *
1050828 CTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTTTTTGTTGACAACCAGCGGTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
1050893 TTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* *
1050934 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTGTTGACAACCAGCGGTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
1050999 TTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* **
1051040 CCTTCGTTGTGAAGTTTTAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGC-GTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
* * *
1051104 TTCATCGTGAAGTTAAACTTGCGTTGTCTGGAGTCTAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * *
1051145 CCTTCGTTGTGAAGTTGCAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
* *
1051210 TTCGTCGTGAAGTTGAACTTGTGTTGTCTAGAGTCCAATAT
66 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * **
1051251 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGACAACCAGCTATCCC
1 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
*
1051316 TTCGTTGTGAAGTTGAACTTG
66 TTCGTCGTGAAGTTGAACTTG
1051337 TGTTATCTCG
Statistics
Matches: 675, Mismatches: 44, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
105 98 0.15
106 576 0.85
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (106 bp):
CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCC
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:1052337 original size:22 final size:22
Alignment explanation
Indices: 1052311--1052365 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1052301 TTGTGTTTGG
1052311 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1052333 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1052355 TCAAAGGTTTG
1 TCAAAGGTTTG
1052366 ATGGGGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1052993 original size:22 final size:22
Alignment explanation
Indices: 1052968--1053033 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
1052958 TTTTTTATCC
1052968 CTTTTTCTTTTTTATTTTTG-TT
1 CTTTTTCTTTTTT-TTTTTGCTT
*
1052990 CTTTTTTCTTCTTCTTTTTTGCTT
1 C-TTTTTCTT-TTTTTTTTTGCTT
1053014 C-TTTTCTTTTTTGTTTTTGC
1 CTTTTTCTTTTTT-TTTTTGC
1053034 CCTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 3 0.08
22 15 0.39
23 14 0.37
24 6 0.16
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (22 bp):
CTTTTTCTTTTTTTTTTTGCTT
Found at i:1053026 original size:16 final size:15
Alignment explanation
Indices: 1052970--1053025 Score: 62
Period size: 16 Copynumber: 3.7 Consensus size: 15
1052960 TTTTATCCCT
* *
1052970 TTTTCTTTTTTATTT
1 TTTTCTTTTTTCTTC
1052985 TTGTTCTTTTTTCTTC
1 TT-TTCTTTTTTCTTC
1053001 --TTCTTTTTTGCTTC
1 TTTTCTTTTTT-CTTC
1053015 TTTTCTTTTTT
1 TTTTCTTTTTT
1053026 GTTTTTGCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
13 9 0.26
14 4 0.11
15 2 0.06
16 20 0.57
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTCTTC
Found at i:1053040 original size:22 final size:21
Alignment explanation
Indices: 1052958--1053040 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 21
1052948 TTGCATGTGC
*
1052958 TTTTTTAT-CCCTTTTTCTTT
1 TTTTTTTTGCCCTTTTTCTTT
* *
1052978 TTTATTTTTGTTCTTTTTTCTTCT
1 TTT-TTTTTG-CCCTTTTTCTT-T
* *
1053002 TCTTTTTTG-CTTCTTTTCTTT
1 TTTTTTTTGCCCT-TTTTCTTT
1053023 TTTGTTTTTGCCCTTTTT
1 TTT-TTTTTGCCCTTTTT
1053041 GTTCTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
20 3 0.06
21 10 0.20
22 17 0.34
23 17 0.34
24 3 0.06
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTTTTTTGCCCTTTTTCTTT
Found at i:1056503 original size:20 final size:20
Alignment explanation
Indices: 1056478--1056523 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1056468 CCGAGTTCTC
*
1056478 CTTGCCGGTGCCCCCTTGGG
1 CTTGCCGGTGCCCCCTTAGG
1056498 CTTGCCGGTGCCCCCTTAGG
1 CTTGCCGGTGCCCCCTTAGG
1056518 CTTGCC
1 CTTGCC
1056524 AGACCCTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.02, C:0.41, G:0.30, T:0.26
Consensus pattern (20 bp):
CTTGCCGGTGCCCCCTTAGG
Found at i:1056551 original size:17 final size:17
Alignment explanation
Indices: 1056510--1056554 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1056500 TGCCGGTGCC
* *
1056510 CCCTTAGGCTTGCCAGA
1 CCCTTAGTCCTGCCAGA
*
1056527 CCCTTAGTCCTGCCATA
1 CCCTTAGTCCTGCCAGA
1056544 CCCTTAGTCCT
1 CCCTTAGTCCT
1056555 AAACCCATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.40, G:0.16, T:0.29
Consensus pattern (17 bp):
CCCTTAGTCCTGCCAGA
Found at i:1057400 original size:5 final size:5
Alignment explanation
Indices: 1057386--1057436 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
1057376 ATGAAACAAA
* ** *
1057386 AAAAT AAAAT GAAAT TGAAT AAAAT AAAAT AAAAT -AAAT GAAGAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
1057436 A
1 A
1057437 TATATACAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 4 0.11
5 30 0.81
6 3 0.08
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:1057556 original size:18 final size:19
Alignment explanation
Indices: 1057521--1057570 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
1057511 AATATAATGA
1057521 AAAT-AAAT-AAATAGTAT
1 AAATAAAATAAAATAGTAT
1057538 AAATAAAATAAAATA-TAT
1 AAATAAAATAAAATAGTAT
*
1057556 ATATATAATATAAAA
1 A-A-ATAAAATAAAA
1057571 ATGTATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.14
18 8 0.29
19 6 0.21
20 10 0.36
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAAAATAAAATAGTAT
Found at i:1057583 original size:19 final size:20
Alignment explanation
Indices: 1057535--1057587 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1057525 AAATAAATAG
* *
1057535 TATAAATAAAATAAAATATA
1 TATATATAATATAAAATATA
*
1057555 TATATATAATATAAAA-ATG
1 TATATATAATATAAAATATA
*
1057574 TATGTATAATATAA
1 TATATATAATATAA
1057588 TAAAATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
TATATATAATATAAAATATA
Found at i:1057771 original size:2 final size:2
Alignment explanation
Indices: 1057764--1057790 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1057754 CATAGATAAA
1057764 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1057791 ATAGAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1057809 original size:8 final size:9
Alignment explanation
Indices: 1057763--1057811 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
1057753 ACATAGATAA
1057763 AATATATAT
1 AATATATAT
1057772 -ATATATAT
1 AATATATAT
1057780 ATATATATAT
1 A-ATATATAT
* *
1057790 AATAGA-AA
1 AATATATAT
1057798 AATA-ATAT
1 AATATATAT
1057806 AATATA
1 AATATA
1057812 ACGCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
7 1 0.03
8 18 0.55
9 5 0.15
10 9 0.27
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
AATATATAT
Found at i:1058391 original size:37 final size:35
Alignment explanation
Indices: 1058350--1058432 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
1058340 GGATCCTATC
* *
1058350 TTTAGGAGTTTAAATAATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATC-T-TT
* ** *
1058387 TTTAGGAGTTTGAATCCTAGCAAAATTCTATCTTT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCTTT
1058422 TTTAGGAGTTT
1 TTTAGGAGTTT
1058433 GAATCCTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 13 0.32
36 1 0.03
37 26 0.65
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (35 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCTTT
Found at i:1076259 original size:34 final size:35
Alignment explanation
Indices: 1076211--1076279 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
1076201 TAACATTCAC
*
1076211 TTATGAACTATAACCTATCT-AAAAAGTATTTATT
1 TTATAAACTATAACCTATCTAAAAAAGTATTTATT
1076245 TTATAAACTATAACCTATCTAAAAAAGTATTTATT
1 TTATAAACTATAACCTATCTAAAAAAGTATTTATT
1076280 AATATTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (35 bp):
TTATAAACTATAACCTATCTAAAAAAGTATTTATT
Found at i:1078527 original size:9 final size:9
Alignment explanation
Indices: 1078497--1078536 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
1078487 ACTGGAAAAT
1078497 CGGTTTGAC
1 CGGTTTGAC
*
1078506 CAGTTTTGAAC
1 C-GGTTTG-AC
1078517 CGGTTTGAC
1 CGGTTTGAC
1078526 CGGTTTGAC
1 CGGTTTGAC
1078535 CG
1 CG
1078537 ATCTGAACCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 14 0.52
10 10 0.37
11 3 0.11
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.33
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:1078570 original size:17 final size:17
Alignment explanation
Indices: 1078548--1078622 Score: 141
Period size: 17 Copynumber: 4.4 Consensus size: 17
1078538 TCTGAACCGG
*
1078548 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
1078565 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
1078582 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
1078599 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
1078616 GTTGACC
1 GTTGACC
1078623 GTTGACCGTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:1078622 original size:7 final size:7
Alignment explanation
Indices: 1078612--1078648 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
1078602 GACCCGACCC
1078612 GACCGTT
1 GACCGTT
1078619 GACCGTT
1 GACCGTT
1078626 GACCG-T
1 GACCGTT
1078632 GACCGTT
1 GACCGTT
*
1078639 GACCATT
1 GACCGTT
1078646 GAC
1 GAC
1078649 TTTCTTTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:1078636 original size:13 final size:14
Alignment explanation
Indices: 1078612--1078648 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
1078602 GACCCGACCC
1078612 GACCGTTGACCGTT
1 GACCGTTGACCGTT
1078626 GACCG-TGACCGTT
1 GACCGTTGACCGTT
*
1078639 GACCATTGAC
1 GACCGTTGAC
1078649 TTTCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:1085155 original size:9 final size:9
Alignment explanation
Indices: 1085127--1085173 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
1085117 GCTGGAAAAT
1085127 CGGTTTGAC
1 CGGTTTGAC
*
1085136 CAGTTTGAC
1 CGGTTTGAC
1085145 CGGTTTGAC
1 CGGTTTGAC
*
1085154 CGGTCTGAAC
1 CGGTTTG-AC
*
1085164 CGGGTTGAC
1 CGGTTTGAC
1085173 C
1 C
1085174 CGACCCGACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.28
Consensus pattern (9 bp):
CGGTTTGAC
Found at i:1085189 original size:17 final size:17
Alignment explanation
Indices: 1085167--1085241 Score: 123
Period size: 17 Copynumber: 4.4 Consensus size: 17
1085157 TCTGAACCGG
*
1085167 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
1085184 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
1085201 GTTGACCCGACACGACC
1 GTTGACCCGACCCGACC
1085218 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
1085235 GTTGACC
1 GTTGACC
1085242 GTTGACCGTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 55 1.00
ACGTcount: A:0.19, C:0.41, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:1085241 original size:7 final size:7
Alignment explanation
Indices: 1085231--1085280 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
1085221 GACCCGACCC
1085231 GACCGTT
1 GACCGTT
1085238 GACCGTT
1 GACCGTT
1085245 GACCG-T
1 GACCGTT
1085251 GACCGTT
1 GACCGTT
1085258 GACCG-T
1 GACCGTT
1085264 GACCGTT
1 GACCGTT
1085271 GACCGTT
1 GACCGTT
1085278 GAC
1 GAC
1085281 TTTCTTTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.29
7 29 0.71
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:1085255 original size:13 final size:13
Alignment explanation
Indices: 1085231--1085276 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
1085221 GACCCGACCC
1085231 GACCGTTGACCGTT
1 GACCG-TGACCGTT
1085245 GACCGTGACCGTT
1 GACCGTGACCGTT
1085258 GACCGTGACCGTT
1 GACCGTGACCGTT
1085271 GACCGT
1 GACCGT
1085277 TGACTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 27 0.84
14 5 0.16
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:1085256 original size:20 final size:20
Alignment explanation
Indices: 1085231--1085280 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1085221 GACCCGACCC
1085231 GACCGTTGACCGTTGACCG-T
1 GACCGTTGACCG-TGACCGTT
1085251 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
1085271 GACCGTTGAC
1 GACCGTTGAC
1085281 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:1092840 original size:42 final size:42
Alignment explanation
Indices: 1092702--1092955 Score: 233
Period size: 43 Copynumber: 6.0 Consensus size: 42
1092692 TGTTTGAGTG
* * * **
1092702 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTAAG
1 ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTT-CC
* * * * * ** *
1092745 ATAAACGCCGTAATAGGT-TATGATATTTAGCGGTATTGTTTTCT
1 ACAAACGCCGCAGTAGGTGT-TGATGTTTTGCGG-CGT-TTTTCC
*
1092789 A-AAACGCCGCAGTAGGTGTTGATGTTTTGCGACGTTTTTCC
1 ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTTCC
*
1092830 ACAAACGCCGCAGTAGATGTTGATGTTTTGCGGCGTTTTTTCC
1 ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCG-TTTTTCC
* * * *
1092873 ATAAACGTCGCAGTAGGTTTTGATGTTTTGCGGCATTTTTCTC
1 ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTTC-C
* * * *
1092916 ACAAACGCCGCAATAGGTATTGATTTTTTGCGGCATTTTT
1 ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTT
1092956 GCTAAAAACG
Statistics
Matches: 178, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
41 6 0.03
42 39 0.22
43 126 0.71
44 3 0.02
45 4 0.02
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (42 bp):
ACAAACGCCGCAGTAGGTGTTGATGTTTTGCGGCGTTTTTCC
Found at i:1092955 original size:128 final size:127
Alignment explanation
Indices: 1092660--1092955 Score: 317
Period size: 128 Copynumber: 2.3 Consensus size: 127
1092650 TTTTAAACAA
* * * * *
1092660 AAAACGCCGCAATAGGTATTGATATTTAGCGGTGTTTGAGTGACAAACGCCGCAATAGGTGTTGA
1 AAAACGCCGCAATAGGTATTGATATTTTGCGGCGTTT--TTCACAAACGCCGCAATAGATGTTGA
* * *
1092725 TATTTAGCGGCGTTTTTAAGATAAACGCCGTAATAGGTTATGATATTTAGCGGTATTGTTTTCT
64 TATTTAGCGGCGTTTTTAACATAAACGCCGCAATAGGTTATGATATTTAGCGGCATTGTTTTCT
* * * * *
1092789 AAAACGCCGCAGTAGGTGTTGATGTTTTGCGACGTTTTTCCACAAACGCCGCAGTAGATGTTGAT
1 AAAACGCCGCAATAGGTATTGATATTTTGCGGCGTTTTT-CACAAACGCCGCAATAGATGTTGAT
* * ** * * * * *
1092854 GTTTTGCGGCGTTTTTTCCATAAACGTCGCAGTAGGTTTTGATGTTTTGCGGCA-T-TTTTCT
65 ATTTAGCGGCGTTTTTAACATAAACGCCGCAATAGGTTATGATATTTAGCGGCATTGTTTTCT
* *
1092915 CACAAACGCCGCAATAGGTATTGATTTTTTGCGGCATTTTT
1 -A-AAACGCCGCAATAGGTATTGATATTTTGCGGCGTTTTT
1092956 GCTAAAAACG
Statistics
Matches: 137, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
126 6 0.04
127 3 0.02
128 97 0.71
129 31 0.23
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (127 bp):
AAAACGCCGCAATAGGTATTGATATTTTGCGGCGTTTTTCACAAACGCCGCAATAGATGTTGATA
TTTAGCGGCGTTTTTAACATAAACGCCGCAATAGGTTATGATATTTAGCGGCATTGTTTTCT
Found at i:1092965 original size:43 final size:42
Alignment explanation
Indices: 1092659--1092968 Score: 221
Period size: 43 Copynumber: 7.2 Consensus size: 42
1092649 TTTTTAAACA
* * ** ***
1092659 AAAAACGCCGCAATAGGTATTGATATTTAGCGGTGTTTGAGT
1 AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTTCT
* * * *
1092701 GACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTT-A
1 -AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTTCT
* * *
1092743 AGATAAACGCCGTAATAGGT-TATGATATTTAGCGGTATTGTTTTCT
1 A-A-AAACGCCGCAATAGGTGT-TGATATTTTGCGGCA-T-TTTTCT
* * * * *
1092789 -AAAACGCCGCAGTAGGTGTTGATGTTTTGCGACGTTTTTCC
1 AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTTCT
* * * * * *
1092830 ACAAACGCCGCAGTAGATGTTGATGTTTTGCGGCGTTTTTTCC
1 AAAAACGCCGCAATAGGTGTTGATATTTTGCGGC-ATTTTTCT
* * * * *
1092873 ATAAACGTCGCAGTAGGTTTTGATGTTTTGCGGCATTTTTCT
1 AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTTCT
* * *
1092915 CACAAACGCCGCAATAGGTATTGATTTTTTGCGGCATTTTTGCT
1 -AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTT-CT
1092959 AAAAACGCCG
1 AAAAACGCCG
1092969 GTAATGTTCT
Statistics
Matches: 221, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
41 6 0.03
42 38 0.17
43 168 0.76
44 5 0.02
45 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
AAAAACGCCGCAATAGGTGTTGATATTTTGCGGCATTTTTCT
Found at i:1092965 original size:86 final size:85
Alignment explanation
Indices: 1092661--1092968 Score: 291
Period size: 86 Copynumber: 3.6 Consensus size: 85
1092651 TTTAAACAAA
* * * *
1092661 AAACGCCGCAATAGGTATTGATATTTAGCGG--TGTTTGAGTGACAAACGCCGCAATAGGTGTTG
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCATTTTTG-CT-AAAAACGCCGCAGTAGGTGTTG
* * ** *
1092724 ATATTTAGCGGCGTTTTTAAGAT
64 ATGTTTTGCGGCGTTTTT-CCAC
* * *
1092747 AAACGCCGTAATAGGT-TATGATATTTAGCGGTATTGTTTTCT-AAAACGCCGCAGTAGGTGTTG
1 AAACGCCGCAATAGGTAT-TGATATTTAGCGGCATT-TTTGCTAAAAACGCCGCAGTAGGTGTTG
*
1092810 ATGTTTTGCGACGTTTTTCCAC
64 ATGTTTTGCGGCGTTTTTCCAC
* * * * * * * * * * *
1092832 AAACGCCGCAGTAGATGTTGATGTTTTGCGGCGTTTTTTCCATAAACGTCGCAGTAGGTTTTGAT
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCATTTTTGCTAAAAACGCCGCAGTAGGTGTTGAT
*
1092897 GTTTTGCGGCATTTTTCTCAC
66 GTTTTGCGGCGTTTTTC-CAC
* *
1092918 AAACGCCGCAATAGGTATTGATTTTTTGCGGCATTTTTGCTAAAAACGCCG
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCATTTTTGCTAAAAACGCCG
1092969 GTAATGTTCT
Statistics
Matches: 181, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
84 5 0.03
85 63 0.35
86 108 0.60
88 2 0.01
89 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (85 bp):
AAACGCCGCAATAGGTATTGATATTTAGCGGCATTTTTGCTAAAAACGCCGCAGTAGGTGTTGAT
GTTTTGCGGCGTTTTTCCAC
Found at i:1093414 original size:21 final size:21
Alignment explanation
Indices: 1093352--1093415 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1093342 ATTCTTCACA
*
1093352 TCTCTGTTGATA-TGCTGCTTC
1 TCTCTG-TGATACCGCTGCTTC
* * *
1093373 TCTCTGTGATGCCCCTACTTC
1 TCTCTGTGATACCGCTGCTTC
*
1093394 TCTCTGTGTTACCGCTGCTTC
1 TCTCTGTGATACCGCTGCTTC
1093415 T
1 T
1093416 TTGTTTGCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 4 0.12
21 30 0.88
ACGTcount: A:0.08, C:0.31, G:0.17, T:0.44
Consensus pattern (21 bp):
TCTCTGTGATACCGCTGCTTC
Found at i:1098421 original size:12 final size:12
Alignment explanation
Indices: 1098402--1098465 Score: 82
Period size: 12 Copynumber: 5.7 Consensus size: 12
1098392 CAATTTCTCC
1098402 TTTT-TTTTCAT
1 TTTTCTTTTCAT
1098413 TTTTCTTTTCAT
1 TTTTCTTTTCAT
1098425 TTTTCTTTTCAT
1 TTTTCTTTTCAT
1098437 TTTTC-TTT--T
1 TTTTCTTTTCAT
*
1098446 TTTTCTTTTCCT
1 TTTTCTTTTCAT
*
1098458 TATTCTTT
1 TTTTCTTT
1098466 CTTTGCTGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
9 6 0.12
10 3 0.06
11 7 0.15
12 32 0.67
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTTTTCAT
Found at i:1098433 original size:24 final size:22
Alignment explanation
Indices: 1098402--1098465 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
1098392 CAATTTCTCC
1098402 TTTT-TTTTCATTTTTCTTTTCAT
1 TTTTCTTTTCATTTTTCTTTT--T
1098425 TTTTCTTTTCATTTTTC-TTTT
1 TTTTCTTTTCATTTTTCTTTTT
* *
1098446 TTTTCTTTTCCTTATTCTTT
1 TTTTCTTTTCATTTTTCTTT
1098466 CTTTGCTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 16 0.43
22 2 0.05
23 7 0.19
24 12 0.32
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTCATTTTTCTTTTT
Found at i:1105013 original size:13 final size:13
Alignment explanation
Indices: 1104994--1105061 Score: 88
Period size: 13 Copynumber: 5.5 Consensus size: 13
1104984 AACCCGACCC
1104994 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
1105007 TACCCGACCAGTT
1 GACCCGACCCGTT
*
1105020 GACCTGA-CC--T
1 GACCCGACCCGTT
1105030 GACCCGACCCGTT
1 GACCCGACCCGTT
1105043 GACCCGACCCGTT
1 GACCCGACCCGTT
1105056 GACCCG
1 GACCCG
1105062 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
10 7 0.15
11 2 0.04
12 1 0.02
13 36 0.78
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1105034 original size:23 final size:23
Alignment explanation
Indices: 1105008--1105051 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1104998 CGACCCGTTT
*
1105008 ACCCGACCAGTTGACCTGACCTG
1 ACCCGACCAGTTGACCCGACCTG
*
1105031 ACCCGACCCGTTGACCCGACC
1 ACCCGACCAGTTGACCCGACC
1105052 CGTTGACCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.14
Consensus pattern (23 bp):
ACCCGACCAGTTGACCCGACCTG
Found at i:1105041 original size:36 final size:36
Alignment explanation
Indices: 1104989--1105059 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
1104979 GTCATAACCC
*
1104989 GACCCGACCCGACCCGTTTACCCGACCAGTTGACCT
1 GACCCGACCCGACCCGTTGACCCGACCAGTTGACCT
* *
1105025 GACCTGACCCGACCCGTTGACCCGACCCGTTGACC
1 GACCCGACCCGACCCGTTGACCCGACCAGTTGACC
1105060 CGTTGACCGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.15
Consensus pattern (36 bp):
GACCCGACCCGACCCGTTGACCCGACCAGTTGACCT
Found at i:1105048 original size:8 final size:8
Alignment explanation
Indices: 1105035--1105084 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
1105025 GACCTGACCC
1105035 GACCCGTT
1 GACCCGTT
1105043 GACCC---
1 GACCCGTT
1105048 GACCCGTT
1 GACCCGTT
1105056 GACCCGTT
1 GACCCGTT
1105064 GA-CCGTT
1 GACCCGTT
1105071 GACCGGCGTT
1 GACC--CGTT
1105081 GACC
1 GACC
1105085 ATTGTTGACC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.14
7 7 0.19
8 16 0.44
10 8 0.22
ACGTcount: A:0.14, C:0.38, G:0.28, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:1105071 original size:15 final size:16
Alignment explanation
Indices: 1105051--1105084 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1105041 TTGACCCGAC
1105051 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
1105066 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
1105083 CC
1 CC
1105085 ATTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:1106412 original size:18 final size:18
Alignment explanation
Indices: 1106386--1106421 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1106376 TCGAAAGAAC
*
1106386 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1106404 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1106422 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1107644 original size:24 final size:24
Alignment explanation
Indices: 1107545--1107651 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
1107535 ATATTTTATC
* *
1107545 TGATTTCTGATTTGAATTATGTTT
1 TGATATCTGATCTGAATTATGTTT
* * * *
1107569 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTATGTTT
* * * * *
1107593 TGA-ATCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTATGTTT
1107617 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTATGTTT
*
1107641 TGATTTCTGAT
1 TGATATCTGAT
1107652 ATCTCCGTTT
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
23 2 0.03
24 60 0.94
25 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTATGTTT
Found at i:1108583 original size:19 final size:19
Alignment explanation
Indices: 1108556--1108596 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1108546 TTTCTTTGAT
*
1108556 ATTACAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
1108575 ATTAAAAAATTAATATATA
1 ATTAAAAAATAAATAAATA
1108594 ATT
1 ATT
1108597 TATAAAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:1108795 original size:3 final size:3
Alignment explanation
Indices: 1108780--1108847 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
1108770 TATTTATATA
* * **
1108780 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
*
1108824 AAT AGT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1108848 TTGCAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 4 0.08
3 45 0.87
4 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:1108857 original size:35 final size:37
Alignment explanation
Indices: 1108779--1108858 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 37
1108769 TTATTTATAT
*
1108779 AAATAATAAAAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAAAAATAATAATAATAAAATAATAATT--AGC
* *
1108818 -AATAATAATAGTAATAATAATAAAATAAT-ATT-GC
1 AAATAATAAAAATAATAATAATAAAATAATAATTAGC
1108852 AAATAAT
1 AAATAAT
1108859 GATTAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 2 0.05
35 6 0.16
37 3 0.08
38 26 0.70
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (37 bp):
AAATAATAAAAATAATAATAATAAAATAATAATTAGC
Found at i:1110136 original size:3 final size:3
Alignment explanation
Indices: 1110130--1110205 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
1110120 AATAATTATT
* * * * *
1110130 TAA TAA TAA TAT TATA TATA TATA TTA TAA TAA TCA TAT TTA TAA TAA
1 TAA TAA TAA TAA TA-A TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
1110178 TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1110206 TTAAGTAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 49 0.84
4 9 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:1110160 original size:24 final size:23
Alignment explanation
Indices: 1110130--1110205 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 23
1110120 AATAATTATT
*
1110130 TAATAATAATATTATATATAT-A
1 TAATAATAATAATATATATATAA
* *
1110152 T-ATTATAATAATCATATTTATAA
1 TAATAATAATAAT-ATATATATAA
*
1110175 TAATAATAATAATA-AT-TTTAA
1 TAATAATAATAATATATATATAA
1110196 TAATAATAAT
1 TAATAATAAT
1110206 TTAAGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 23 0.50
22 10 0.22
23 3 0.07
24 10 0.22
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATAATAATAATATATATATAA
Found at i:1111796 original size:2 final size:2
Alignment explanation
Indices: 1111789--1111815 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1111779 ATTTTTGAAT
1111789 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1111816 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1114745 original size:25 final size:25
Alignment explanation
Indices: 1114711--1114759 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1114701 TCGTAAATGT
1114711 CTGTGAAAGGGGGGAAATGGTATCG
1 CTGTGAAAGGGGGGAAATGGTATCG
1114736 CTGTGAAAGGGGGGAAATGGTATC
1 CTGTGAAAGGGGGGAAATGGTATC
1114760 ACAGGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.43, T:0.20
Consensus pattern (25 bp):
CTGTGAAAGGGGGGAAATGGTATCG
Found at i:1114943 original size:41 final size:41
Alignment explanation
Indices: 1114883--1114961 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
1114873 CTATTACGGC
* * *
1114883 ATTTTTTTATAAACACCGCTAAAG-ATTATGGATATTACATA
1 ATTTTTCTACAAACACCGCTAAAGTA-CATGGATATTACATA
*
1114924 ATTTTTCTACAAACGCCGCTAAAGTACATGGATATTAC
1 ATTTTTCTACAAACACCGCTAAAGTACATGGATATTAC
1114962 GGCATTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (41 bp):
ATTTTTCTACAAACACCGCTAAAGTACATGGATATTACATA
Found at i:1117998 original size:20 final size:20
Alignment explanation
Indices: 1117969--1118014 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1117959 TGGGTTCCTC
* *
1117969 TACTTATGCAATGGCTCCAT
1 TACTTGTGCAATAGCTCCAT
1117989 TACTTGTGCAATAGCTCCAT
1 TACTTGTGCAATAGCTCCAT
1118009 TA-TTGT
1 TACTTGT
1118015 CACAACGGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
TACTTGTGCAATAGCTCCAT
Found at i:1127712 original size:2 final size:2
Alignment explanation
Indices: 1127705--1127733 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1127695 TATTTCGAAT
1127705 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1127734 CAATTAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1130158 original size:80 final size:80
Alignment explanation
Indices: 1130025--1130186 Score: 281
Period size: 80 Copynumber: 2.0 Consensus size: 80
1130015 GTGCAATTCT
* *
1130025 AATTTTAATTATGTTGTTCCAAAGGAACAAATGAATTTTTATGAGACAAAGTGAAACTAAAAACA
1 AATTTTAATTATGTTGTTCCAAAGGAACAAATAAAGTTTTATGAGACAAAGTGAAACTAAAAACA
1130090 AGAAGTAAAGAAAAG
66 AGAAGTAAAGAAAAG
1130105 AATTTTAATTATGTTGCTT-CAAAGGAACAAATAAAGTTTTATGAGACAAAGTGAAACTAAAAAC
1 AATTTTAATTATGTTG-TTCCAAAGGAACAAATAAAGTTTTATGAGACAAAGTGAAACTAAAAAC
*
1130169 GAGAAGTAAAGAAAAG
65 AAGAAGTAAAGAAAAG
1130185 AA
1 AA
1130187 ATCAATTTTC
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 76 0.97
81 2 0.03
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (80 bp):
AATTTTAATTATGTTGTTCCAAAGGAACAAATAAAGTTTTATGAGACAAAGTGAAACTAAAAACA
AGAAGTAAAGAAAAG
Found at i:1131270 original size:2 final size:2
Alignment explanation
Indices: 1131263--1131294 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1131253 ACACATATTT
1131263 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1131295 TTGAGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1133732 original size:3 final size:3
Alignment explanation
Indices: 1133718--1133791 Score: 71
Period size: 3 Copynumber: 25.3 Consensus size: 3
1133708 AGCAAACATA
* * * * ** *
1133718 AAT AAT ATT AAT AAT AAT ACT AAT AAT TAT TAT AAT -AT AAT TGT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1133765 AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1133792 TTTATAACCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:1133774 original size:32 final size:32
Alignment explanation
Indices: 1133715--1133798 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 32
1133705 GAAAGCAAAC
* *
1133715 ATAA-ATAATATTAATAATAATACTAATAATTA
1 ATAATATAATATTTATAATAATAATAATAA-TA
1133747 TTATAATATAAT-TGTTATAATAATAATAATAATA
1 --ATAATATAATAT-TTATAATAATAATAATAATA
1133781 ATAATATAATATTTATAA
1 ATAATATAATATTTATAA
1133799 CCCAGACAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 16 0.36
33 1 0.02
34 7 0.16
35 21 0.47
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAATATAATATTTATAATAATAATAATAATA
Found at i:1134008 original size:56 final size:56
Alignment explanation
Indices: 1133947--1134454 Score: 617
Period size: 55 Copynumber: 9.2 Consensus size: 56
1133937 CCTTTTCTTT
* * *
1133947 GAACAATCTTC-G-AACAGCGGGTTCGCTCCCTCTTGCTTTCATGGAGTATGGAACTC
1 GAACAATCTTCTGCAA-A-CGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * * *
1134003 GAACAATCTTCTACCAACAGGTTCGCTCCCTCTTGCTTTCAGGGAGTATAGAACTT
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* *
1134059 GAATAATCTTCTGTAAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTAT-GAACTC
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* *
1134113 GAACAATCTTCTACAAATGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * ** *
1134169 GAA-TATATTCTGCAAACGGGTTTGCTCCCTCTTTCTTT-AGGGAACAT-GAAACTT
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAG-AACTC
* *
1134223 GAACAATCTTTTG-ACAATGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTGCA-AACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* **
1134279 GAATAATCTTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
*
1134335 GAA-TATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * * * *
1134390 GAA-TATCTTCTTCATACGGGTTTGCTTCCTCTTTCTTT-AGAGAGTATA-AGACTC
1 GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGA-ACTC
1134444 GAACAATCTTC
1 GAACAATCTTC
1134455 AACAATCGTG
Statistics
Matches: 393, Mismatches: 47, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.01
54 71 0.18
55 165 0.42
56 151 0.38
57 3 0.01
58 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (56 bp):
GAACAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
Found at i:1134160 original size:55 final size:56
Alignment explanation
Indices: 1133947--1134569 Score: 607
Period size: 55 Copynumber: 11.3 Consensus size: 56
1133937 CCTTTTCTTT
* * * * *
1133947 GAACAATCTTCGA-ACAGCGGGTTCGCTCCCTCTTGCTTTCATGGAGTATGGAACTC
1 GAACAATCTTCTACA-AACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * *
1134003 GAACAATCTTCTACCAACAGGTTCGCTCCCTCTTGCTTTCAGGGAGTATAGAACTT
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* **
1134059 GAATAATCTTCTGTAAACGGGTTCGCTCCCTCTTTCTTT-AGGGAGTAT-GAACTC
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
*
1134113 GAACAATCTTCTACAAATGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * * ** *
1134169 GAA-TATATTCTGCAAACGGGTTTGCTCCCTCTTTCTTT-AGGGAACAT-GAAACTT
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAG-AACTC
* *
1134223 GAACAATCTTTTGAC-AATGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCT-ACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * **
1134279 GAATAATCTTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* *
1134335 GAA-TATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
* * * * * *
1134390 GAA-TATCTTCTTCATACGGGTTTGCTTCCTCTTTCTTT-AGAGAGTATA-AGACTC
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGA-ACTC
* * * * *
1134444 GAACAATCTTCAACAATCGTG-TCTGCT--CTCTATTCCTTCAGAGAGTATA-AGACTC
1 GAACAATCTTCTACAAACGGGTTC-GCTCCCTCT-TTCTTTCAGGGAGTATAGA-ACTC
* * * * * * **
1134499 AAACAATCTTCAACAATCGTG-TCTGCTCTCTATTTC-TTCAGAAAGTATA-AGACTC
1 GAACAATCTTCTACAAACGGGTTC-GCTCCCTCTTTCTTTCAGGGAGTATAGA-ACTC
*
1134554 GAACAATCTTCAACAA
1 GAACAATCTTCTACAA
1134570 TCATGTTTGC
Statistics
Matches: 490, Mismatches: 61, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.01
54 76 0.16
55 248 0.51
56 156 0.32
57 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (56 bp):
GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
Found at i:1134279 original size:166 final size:165
Alignment explanation
Indices: 1133947--1134459 Score: 637
Period size: 166 Copynumber: 3.1 Consensus size: 165
1133937 CCTTTTCTTT
* * * * * *
1133947 GAACAATCTTCGA-ACAGCGGGTTCGCTCCCTCTTGCTTTCATGGAGTATGGAACTCGAACAATC
1 GAACAATCTTCTACA-AACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAA-TATC
* * * * *
1134011 TTCTACCAACAGGTTCGCTCCCTCTTGCTTTCAGGGAGTATAGAACTTGAATAATCTTCTGTA-A
64 TTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTTGAA-AATCTTTTG-ACA
1134075 ACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAT-GAACTC
127 ACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC
* *
1134113 GAACAATCTTCTACAAATGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATATT
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTT
* ** *
1134178 CTGCAAACGGGTTTGCTCCCTCTTTCTTT-AGGGAACAT-GAAACTTGAACAATCTTTTGACAAT
66 CTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAG-AACTTGAA-AATCTTTTGACAAC
1134241 GGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTC
129 GGGTTCGCTCCCTCTTTCTTT-AGGGAGTATAGAACTC
* * **
1134279 GAATAATCTTCTGCAAACGGGTTTTCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTT
1 GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTT
* *
1134344 CTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTTCTT--CATAC
66 CTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTTGAAAATCTT-TTGACA-AC
* * *
1134407 GGGTTTGCTTCCTCTTTCTTTAGAGAGTATA-AGACTC
129 GGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA-ACTC
*
1134444 GAACAATCTTCAACAA
1 GAACAATCTTCTACAA
1134460 TCGTGTCTGC
Statistics
Matches: 301, Mismatches: 36, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
163 2 0.01
164 47 0.16
165 65 0.22
166 169 0.56
167 17 0.06
168 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (165 bp):
GAACAATCTTCTACAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAATATCTT
CTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTTGAAAATCTTTTGACAACGG
GTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTC
Found at i:1134570 original size:55 final size:55
Alignment explanation
Indices: 1134421--1134596 Score: 273
Period size: 55 Copynumber: 3.2 Consensus size: 55
1134411 TTGCTTCCTC
* *
1134421 TTTCTTTAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTA
1 TTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTA
* * *
1134476 TTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGTGTCTGCTCTCTA
1 TTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTA
* *
1134531 TTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCATGTTTGCTC-CATA
1 TTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTC-TA
1134586 TTTCTTCAGAA
1 TTTCTTCAGAA
1134597 TACCTGTATT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
54 1 0.01
55 111 0.99
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (55 bp):
TTTCTTCAGAAAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTA
Found at i:1135249 original size:13 final size:13
Alignment explanation
Indices: 1135231--1135279 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
1135221 CCTTTTATTC
1135231 ATTTTTTTCATTT
1 ATTTTTTTCATTT
1135244 ATTTTTTTC-TCTT
1 ATTTTTTTCAT-TT
*
1135257 TTTCATTTTTCATTT
1 ATT--TTTTTCATTT
1135272 ATTTTTTT
1 ATTTTTTT
1135280 TTTCTCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 1 0.03
13 18 0.60
15 10 0.33
16 1 0.03
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (13 bp):
ATTTTTTTCATTT
Found at i:1144490 original size:3 final size:3
Alignment explanation
Indices: 1144476--1144565 Score: 76
Period size: 3 Copynumber: 30.7 Consensus size: 3
1144466 AGTAAACATA
* * * * * *
1144476 AAT AAT ATT AAT AAT AAT ACT AAT AAT TAT TAT AAT -AT AAT TAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * *
1144523 AAT -AT AAT TGT TAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1144566 CCCTGACAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
2 4 0.06
3 67 0.94
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:1144517 original size:14 final size:14
Alignment explanation
Indices: 1144498--1144556 Score: 82
Period size: 14 Copynumber: 4.1 Consensus size: 14
1144488 AATAATACTA
1144498 ATAATTATTATAAT
1 ATAATTATTATAAT
1144512 ATAATTATTATAAT
1 ATAATTATTATAAT
*
1144526 ATAATTGTTATAAT
1 ATAATTATTATAAT
* *
1144540 AATAATAATAATAAT
1 -ATAATTATTATAAT
1144555 AT
1 AT
1144557 TAATAATAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 29 0.73
15 11 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
ATAATTATTATAAT
Found at i:1145693 original size:28 final size:27
Alignment explanation
Indices: 1145662--1145715 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
1145652 ATTATATATA
1145662 TATTAGTTTTATTATTT-TTTATATTTGC
1 TATTAGTTTTATT-TTTCTTTAT-TTTGC
*
1145690 TATTATTTTTATTTTTCTTTATTTTG
1 TATTAGTTTTATTTTTCTTTATTTTG
1145716 TGTTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (27 bp):
TATTAGTTTTATTTTTCTTTATTTTGC
Found at i:1145711 original size:16 final size:18
Alignment explanation
Indices: 1145671--1145714 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
1145661 ATATTAGTTT
1145671 TATTATTTTTTATATTTGC
1 TATTA-TTTTTATATTTGC
*
1145690 TATTATTTTTAT-TTTTC
1 TATTATTTTTATATTTGC
1145707 T-TTATTTT
1 TATTATTTT
1145715 GTGTTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 5 0.21
18 7 0.29
19 5 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (18 bp):
TATTATTTTTATATTTGC
Found at i:1145712 original size:19 final size:21
Alignment explanation
Indices: 1145660--1145712 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 21
1145650 TTATTATATA
* *
1145660 TATATTAGTTTTATTATTTTT
1 TATATTTGCTTTATTATTTTT
1145681 TATATTTGC--TATTA-TTTT
1 TATATTTGCTTTATTATTTTT
*
1145699 TAT-TTTTCTTTATT
1 TATATTTGCTTTATT
1145713 TTGTGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 9 0.33
21 7 0.26
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (21 bp):
TATATTTGCTTTATTATTTTT
Found at i:1161308 original size:27 final size:28
Alignment explanation
Indices: 1161278--1161346 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 28
1161268 GCCAGAAATC
1161278 GAAAAAAGGAAAATAAAAAGAAA-A-AAA
1 GAAAAAA-GAAAATAAAAAGAAAGAGAAA
1161305 GAAAAAAGAAAAT-AAAAGAAAGAGAAA
1 GAAAAAAGAAAATAAAAAGAAAGAGAAA
1161332 -AAGAAAAGAAAATAA
1 GAA-AAAAGAAAATAA
1161347 GGTGGGTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 8 0.21
26 9 0.24
27 20 0.53
28 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (28 bp):
GAAAAAAGAAAATAAAAAGAAAGAGAAA
Found at i:1161311 original size:21 final size:20
Alignment explanation
Indices: 1161279--1161343 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
1161269 CCAGAAATCG
* *
1161279 AAAAAAGGAAAATAAAAAGA
1 AAAAAAGAAAAAAAAAAAGA
* *
1161299 AAAAAAGAAAAAAGAAAATA
1 AAAAAAGAAAAAAAAAAAGA
*
1161319 AAAGAAAGAGAAAAAGAAAAGA
1 AAA-AAAGA-AAAAAAAAAAGA
1161341 AAA
1 AAA
1161344 TAAGGTGGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 19 0.50
21 5 0.13
22 14 0.37
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAAAAAAAAGA
Found at i:1161323 original size:17 final size:16
Alignment explanation
Indices: 1161292--1161343 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
1161282 AAAGGAAAAT
1161292 AAAAAG-AAAAAAAGA
1 AAAAAGAAAAAAAAGA
1161307 AAAAAGAAAATAAAAGA
1 AAAAAGAAAA-AAAAGA
*
1161324 AAGAGAA-AAAGAAAAGA
1 AA-A-AAGAAAAAAAAGA
1161341 AAA
1 AAA
1161344 TAAGGTGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.19
16 4 0.12
17 16 0.50
18 4 0.12
19 2 0.06
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAGA
Found at i:1161330 original size:6 final size:5
Alignment explanation
Indices: 1161293--1161343 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
1161283 AAGGAAAATA
* *
1161293 AAAAG AAAA- AAAGAA AAAAG AAAAT AAAAG AAAGAG AAAAAG AAAAG
1 AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAA-AG -AAAAG AAAAG
1161340 AAAA
1 AAAA
1161344 TAAGGTGGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 3 0.08
5 26 0.67
6 7 0.18
7 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:1163866 original size:12 final size:12
Alignment explanation
Indices: 1163842--1163880 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1163832 GAATAGTGAT
1163842 TGACGGTGAATAG
1 TGAC-GTGAATAG
1163855 TGAC-TGGAATAG
1 TGACGT-GAATAG
1163867 TGACGTGAATAG
1 TGACGTGAATAG
1163879 TG
1 TG
1163881 TCTGATGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.04
12 18 0.75
13 5 0.21
ACGTcount: A:0.31, C:0.08, G:0.36, T:0.26
Consensus pattern (12 bp):
TGACGTGAATAG
Found at i:1169476 original size:62 final size:62
Alignment explanation
Indices: 1169379--1169550 Score: 245
Period size: 62 Copynumber: 2.8 Consensus size: 62
1169369 AGTCAATCAT
* * * *
1169379 TGACTTCATCGTTAAGAGAAGTCAACATTTGTTATTTCTGACTCCCCAATAGATTCAATTTC
1 TGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGACTCCCCAATAGAGTCAATTTC
* * * * *
1169441 TGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTTTGACTTCCTAATAGAGTCAATTTT
1 TGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGACTCCCCAATAGAGTCAATTTC
* *
1169503 TGACTTCCTCGTGAAGAGAAGTCAACATATATTATTTCTGATTCCCCA
1 TGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGACTCCCCA
1169551 GAGGAGATAA
Statistics
Matches: 95, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (62 bp):
TGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGACTCCCCAATAGAGTCAATTTC
Found at i:1169576 original size:62 final size:60
Alignment explanation
Indices: 1169378--1169589 Score: 221
Period size: 62 Copynumber: 3.4 Consensus size: 60
1169368 AAGTCAATCA
* * * * *
1169378 TTGACTTCATCGTTAAGAGAAGTCAACATTTGTTATTTCTGACTCCCCAATAGATTCAATT
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGATTCCCCAAGAGA-TCAATT
* * * *
1169439 TCTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTTTGACTT-CCTAATAGAGTCAATTT
1 T-TGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGA-TTCCCCAAGAGA-TCAA-TT
*
1169502 TTGACTTCCTCGTGAAGAGAAGTCAACATATATTATTTCTGATTCCCCAGAGGAGAT-AATT
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGATTCCCCA-A-GAGATCAATT
* * *
1169563 CTTGATTTTCTCGTAAAGAGAAGTCAA
1 -TTGACTTCCTCGTGAAGAGAAGTCAA
1169590 TCTTTTTAAT
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
61 5 0.04
62 114 0.89
63 6 0.05
64 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (60 bp):
TTGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGATTCCCCAAGAGATCAATT
Found at i:1169582 original size:124 final size:124
Alignment explanation
Indices: 1169369--1169594 Score: 296
Period size: 124 Copynumber: 1.8 Consensus size: 124
1169359 TTCCTCTCAA
* * * *
1169369 AGTCAATCATTGACTTCATCGTTAAGAGAAGTCAACATTTGTTATTTCTGACTCCCCAATAGATT
1 AGTCAATCATTGACTTCATCGTGAAGAGAAGTCAACATATATTATTTCTGACTCCCCAAGAGATT
*
1169434 CAATTTCTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTTTGACTTCCTAATAG
66 CAATTTCTGACTTCCTCGTAAAGAGAAGTCAACCTTTATTATTTTTGACTTCCTAATAG
** * *
1169493 AGTCAATTTTTGACTTCCTCGTGAAGAGAAGTCAACATATATTATTTCTGATTCCCCAGAGGAGA
1 AGTCAATCATTGACTTCATCGTGAAGAGAAGTCAACATATATTATTTCTGACTCCCCA-A-GAGA
* * *
1169558 -T-AA-TTCTTGATTTTCTCGTAAAGAGAAGTCAATCTTT
64 TTCAATTTC-TGACTTCCTCGTAAAGAGAAGTCAACCTTT
1169595 TTAATTTGAT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
123 3 0.03
124 79 0.91
125 2 0.02
126 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (124 bp):
AGTCAATCATTGACTTCATCGTGAAGAGAAGTCAACATATATTATTTCTGACTCCCCAAGAGATT
CAATTTCTGACTTCCTCGTAAAGAGAAGTCAACCTTTATTATTTTTGACTTCCTAATAG
Found at i:1169781 original size:90 final size:90
Alignment explanation
Indices: 1169627--1169854 Score: 262
Period size: 90 Copynumber: 2.5 Consensus size: 90
1169617 ATGAAGTAAA
* *
1169627 TTAATTCATATTTGGTCTTCACGTAAGAGTAGTGCAAGCAAATCAATCTCAAGTCTGATATTCAC
1 TTAATTCATATTTGGTCTCCACGGAAGAGTAGTGCAAGCAAATCAATCTCAAGTCTGATATTCAC
*
1169692 GGAAGAGTAGTGGAATAGATTCTTC
66 GGAAGAGTAGTGGAACAGATTCTTC
* * * ** *
1169717 TTAATTCATATTTGGTCTCCACGGATGAGTATTGGAAGCAAATCAA-CTTTGAGTCTGATCTTCA
1 TTAATTCATATTTGGTCTCCACGGAAGAGTAGTGCAAGCAAATCAATC-TCAAGTCTGATATTCA
*
1169781 CGGAAGAGTAGTGGAACATATTCTTC
65 CGGAAGAGTAGTGGAACAGATTCTTC
* * * * * * ** *
1169807 TTATTTTAGATTTAGCCTTCACAAAAGAGTAGTG-AAGCAAAGCAATCT
1 TTAATTCATATTTGGTCTCCACGGAAGAGTAGTGCAAGCAAATCAATCT
1169855 TAATCTTCAC
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
89 12 0.10
90 103 0.90
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (90 bp):
TTAATTCATATTTGGTCTCCACGGAAGAGTAGTGCAAGCAAATCAATCTCAAGTCTGATATTCAC
GGAAGAGTAGTGGAACAGATTCTTC
Found at i:1169871 original size:36 final size:36
Alignment explanation
Indices: 1169822--1169918 Score: 133
Period size: 36 Copynumber: 2.7 Consensus size: 36
1169812 TTAGATTTAG
* *
1169822 CCTTCACAAAAGAGTAGTGAAGCAAAGCAATCT-TAA
1 CCTTCACAGAAGAGTAGTGAAGCAAAACAAT-TATAA
* * *
1169858 TCTTCACAGAAGAGTAGTGAAGCAAAATAATTATAG
1 CCTTCACAGAAGAGTAGTGAAGCAAAACAATTATAA
1169894 CCTTCACAGAAGAGTAGTGAAGCAA
1 CCTTCACAGAAGAGTAGTGAAGCAA
1169919 GATAAAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 1 0.02
36 53 0.98
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (36 bp):
CCTTCACAGAAGAGTAGTGAAGCAAAACAATTATAA
Found at i:1170209 original size:136 final size:136
Alignment explanation
Indices: 1169959--1170591 Score: 731
Period size: 136 Copynumber: 4.7 Consensus size: 136
1169949 AATAGTAGAG
* * ** * * * *
1169959 CAGATGTCCTCATCATGAAGGAACTTTGTTATCTCAAATATATTAACGATGGCCAGATGTCCTTA
1 CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTAAAGATGGCCAAATGTCCTCA
*
1170024 TCACGAAGGAACAATGTCATCTC-CCAATCATAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
66 TCACGAAGGAACAATGTCATC-CACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
1170088 AGATAAC
130 AGATAAC
* ** * * * *
1170095 CAGACTTCCTCATCATTAAGGAACTATGTTATCACAAATATCTTAAAGATGGCCAGATGTCATCA
1 CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTAAAGATGGCCAAATGTCCTCA
* * * *
1170160 TCACGAAGGAACAATATCATCTACCAATCACAACTCCTCATCATGAAGGAGTCGCGTCATCCTTA
66 TCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTTA
1170225 GATAAC
131 GATAAC
* * * * *
1170231 CAGACATCCTCATCACGAAGAAACCGTGTTATCTCAAATATCTTTAAATATGGCCATATGTCCTC
1 CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATC-TTAAAGATGGCCAAATGTCCTC
* * * * *
1170296 ATCACGAAGAAACAATGTCATCCACCGATCAGAA---CTC--CACGAAGGAG-CAACATCATCCA
65 ATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTC-GCGTCATCCT
*
1170355 TAGATAGC
129 TAGATAAC
* **
1170363 CAGACGTCCTCATCACGAAAGAACCATGTTATCTCAAATATCTTTAAAGATGGATAAATGTCCTC
1 CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATC-TTAAAGATGGCCAAATGTCCTC
* * ** * * * * * *
1170428 ATCACGAAGGAACATTATCATCCACTGACCAGAACTCCTCATTACGTAGGAGCCGAGTCATCCTC
65 ATCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTT
1170493 AGATAAC
130 AGATAAC
* *
1170500 CAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAAAGATGGCCAAAAGTCCTC
1 CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTT-AAAGATGGCCAAATGTCCTC
* * *
1170565 AACACGAGGGAACAATGTCATACACCA
65 ATCACGAAGGAACAATGTCATCCACCA
1170592 GTTGGATCTC
Statistics
Matches: 421, Mismatches: 66, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
131 1 0.00
132 109 0.26
134 3 0.01
135 3 0.01
136 159 0.38
137 145 0.34
138 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (136 bp):
CAGACGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTAAAGATGGCCAAATGTCCTCA
TCACGAAGGAACAATGTCATCCACCAATCAGAACTCCTCATCACGAAGGAGTCGCGTCATCCTTA
GATAAC
Found at i:1170466 original size:269 final size:270
Alignment explanation
Indices: 1169965--1170591 Score: 760
Period size: 269 Copynumber: 2.3 Consensus size: 270
1169955 AGAGCAGATG
* ** * * * *
1169965 TCCTCATCATGAAGGAACTTTGTTATCTCAAATAT-ATTAACGATGGCCAGATGTCCTTATCACG
1 TCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCCAAATGTCCTCATCACG
* * * *
1170029 AAGGAACAATGTCATCTC-CCAATCATAACTCCTCATCACGAAGGAGTCGCGTCATCCTTAGATA
66 AAGGAACAATGTCATC-CACCAATCAGAA--CCTCA-CACGAAGGAGTCACATCATCCATAGATA
* ** * * * *
1170093 ACCAGACTTCCTCATCATTAAGGAACTATGTTATCACAAATATCTTAAAGATGGCCAGATGTCAT
127 ACCAGACGTCCTCATCACGAAAGAACCATGTTATCACAAATATCTTAAAGATGGACAAATGTCAT
* * * * *
1170158 CATCACGAAGGAACAATATCATCTACCAATCACAACTCCTCATCATGAAGGAGTCGCGTCATCCT
192 CATCACGAAGGAACAATATCATCCACCAACCACAACTCCTCATCACGAAGGAGCCGAGTCATCCT
*
1170223 TAGATAACCAGACA
257 CAGATAACCAGACA
* * *
1170237 TCCTCATCACGAAGAAACCGTGTTATCTCAAATATCTTTAAATATGGCCATATGTCCTCATCACG
1 TCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCCAAATGTCCTCATCACG
* * *
1170302 AAGAAACAATGTCATCCACCGATCAGAA-CTC-CACGAAGGAG-CAACATCATCCATAGATAGCC
66 AAGGAACAATGTCATCCACCAATCAGAACCTCACACGAAGGAGTC-ACATCATCCATAGATAACC
* * *
1170364 AGACGTCCTCATCACGAAAGAACCATGTTATCTCAAATATCTTTAAAGATGGATAAATGTCCTCA
130 AGACGTCCTCATCACGAAAGAACCATGTTATCACAAATATC-TTAAAGATGGACAAATGTCATCA
* ** * * *
1170429 TCACGAAGGAACATTATCATCCACTGACCAGAACTCCTCATTACGTAGGAGCCGAGTCATCCTCA
194 TCACGAAGGAACAATATCATCCACCAACCACAACTCCTCATCACGAAGGAGCCGAGTCATCCTCA
*
1170494 GATAACCAGACG
259 GATAACCAGACA
* * *
1170506 TCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTCAAAGATGGCCAAAAGTCCTCAACACG
1 TCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCCAAATGTCCTCATCACG
* *
1170571 AGGGAACAATGTCATACACCA
66 AAGGAACAATGTCATCCACCA
1170592 GTTGGATCTC
Statistics
Matches: 302, Mismatches: 49, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
267 1 0.00
268 60 0.20
269 159 0.53
270 3 0.01
272 32 0.11
273 47 0.16
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (270 bp):
TCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTAAAGATGGCCAAATGTCCTCATCACG
AAGGAACAATGTCATCCACCAATCAGAACCTCACACGAAGGAGTCACATCATCCATAGATAACCA
GACGTCCTCATCACGAAAGAACCATGTTATCACAAATATCTTAAAGATGGACAAATGTCATCATC
ACGAAGGAACAATATCATCCACCAACCACAACTCCTCATCACGAAGGAGCCGAGTCATCCTCAGA
TAACCAGACA
Found at i:1171409 original size:31 final size:32
Alignment explanation
Indices: 1171343--1171416 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
1171333 GGCCATGGGT
* *
1171343 CCTACCTAAGAACACATCTTAGGGCCACAGGG
1 CCTACCTAAGAACACATCTCAGGGCCACAGAG
* * *
1171375 CCTACCTGAGAATA-ATCTCAGGGCCGCAGAG
1 CCTACCTAAGAACACATCTCAGGGCCACAGAG
1171406 CCTACCTAAGA
1 CCTACCTAAGA
1171417 GTCACATTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (32 bp):
CCTACCTAAGAACACATCTCAGGGCCACAGAG
Found at i:1181360 original size:60 final size:60
Alignment explanation
Indices: 1181277--1181394 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 60
1181267 ATATATAAAA
* *
1181277 TTTTGAAAACATATACAATATATAGTTTTTGAAAACGTTTTGAAAACATTTATATATAGT
1 TTTTGAAAACATATACAATATATAGTTTTTGAAAACATTTTGAAAACATATATATATAGT
* * * * * *
1181337 TTTTGAAAATATATATAATATATATTTTTTGAAAATATTTTGAATATATATATATATA
1 TTTTGAAAACATATACAATATATAGTTTTTGAAAACATTTTGAAAACATATATATATA
1181395 TATAATATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (60 bp):
TTTTGAAAACATATACAATATATAGTTTTTGAAAACATTTTGAAAACATATATATATAGT
Found at i:1181364 original size:24 final size:23
Alignment explanation
Indices: 1181314--1181387 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 23
1181304 TTTGAAAACG
*
1181314 TTTTGAAAACATT-T-ATATATA
1 TTTTGAAAATATTATAATATATA
1181335 GTTTTTGAAAATATATATAATATATA
1 --TTTTGAAAATAT-TATAATATATA
*
1181361 TTTTTTGAAAATATTTTGAATATATA
1 --TTTTGAAAATATTAT-AATATATA
1181387 T
1 T
1181388 ATATATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 11 0.25
24 2 0.05
25 3 0.07
26 28 0.64
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (23 bp):
TTTTGAAAATATTATAATATATA
Found at i:1181365 original size:26 final size:26
Alignment explanation
Indices: 1181328--1181387 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1181318 GAAAACATTT
*
1181328 ATATATAGTTTTTGAAAATATATAT-A
1 ATATATATTTTTTGAAAATAT-TATGA
*
1181354 ATATATATTTTTTGAAAATATTTTGA
1 ATATATATTTTTTGAAAATATTATGA
1181380 ATATATAT
1 ATATATAT
1181388 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (26 bp):
ATATATATTTTTTGAAAATATTATGA
Found at i:1181387 original size:37 final size:37
Alignment explanation
Indices: 1181337--1181489 Score: 171
Period size: 37 Copynumber: 3.9 Consensus size: 37
1181327 TATATATAGT
* *
1181337 TTTTGAAAATATATATAATATATATTTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
*
1181374 TTTTGAATATATATATATATATATAATATAATTTTTGAAAACA
1 TTTTG-A-A-A-ATATATATA-AT-ATATAGTTTTTGAAAACA
*
1181417 TTTTGAAACATATATATAATATGTAGTTTTTGAAAACA
1 TTTTGAAA-ATATATATAATATATAGTTTTTGAAAACA
* ** *
1181455 TTTTTAAAATATATATGTTATATAGTTTTTAAAAA
1 TTTTGAAAATATATATAATATATAGTTTTTGAAAA
1181490 AATATTTGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
37 28 0.28
38 24 0.24
39 3 0.03
40 11 0.11
41 10 0.10
42 3 0.03
43 21 0.21
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:1181388 original size:28 final size:25
Alignment explanation
Indices: 1181314--1181374 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
1181304 TTTGAAAACG
* *
1181314 TTTTGAAAACAT-T-TATATATAGT
1 TTTTGAAAATATATATATATATATT
1181337 TTTTGAAAATATATATAATATATATT
1 TTTTGAAAATATATAT-ATATATATT
1181363 TTTTGAAAATAT
1 TTTTGAAAATAT
1181375 TTTGAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 11 0.33
24 1 0.03
25 1 0.03
26 20 0.61
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (25 bp):
TTTTGAAAATATATATATATATATT
Found at i:1181403 original size:43 final size:41
Alignment explanation
Indices: 1181337--1181478 Score: 149
Period size: 38 Copynumber: 3.6 Consensus size: 41
1181327 TATATATAGT
*
1181337 TTTTGAAA-ATATATATA-ATATATAT--TTTTTGAAAATA
1 TTTTGAAACATATATATATATATATATAATTTTTGAAAACA
*
1181374 TTTTGAATATATATATATATATATAATATAATTTTTGAAAACA
1 TTTTGAA-ACATATATATATATAT-ATATAATTTTTGAAAACA
* *
1181417 TTTTGAAAC--ATATATATA-ATATGTAGTTTTTGAAAACA
1 TTTTGAAACATATATATATATATATATAATTTTTGAAAACA
* *
1181455 TTTTTAAA-ATATATATGT-TATATA
1 TTTTGAAACATATATATATATATATA
1181479 GTTTTTAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
37 7 0.08
38 24 0.27
39 22 0.25
40 13 0.15
41 4 0.04
42 1 0.01
43 18 0.20
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.47
Consensus pattern (41 bp):
TTTTGAAACATATATATATATATATATAATTTTTGAAAACA
Found at i:1181494 original size:26 final size:24
Alignment explanation
Indices: 1181455--1181502 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
1181445 TTTGAAAACA
*
1181455 TTTTTAAAATATATATGTTATATAG
1 TTTTTAAAAAATATATG-TATATAG
*
1181480 TTTTTAAAAAAATATTTGTATAT
1 TTTTT-AAAAAATATATGTATAT
1181503 TATATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTTAAAAAATATATGTATATAG
Found at i:1181540 original size:7 final size:7
Alignment explanation
Indices: 1181520--1181561 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
1181510 TGTAGTATAC
*
1181520 TATTATA
1 TATTATT
1181527 TATTATT
1 TATTATT
1181534 TATTATT
1 TATTATT
1181541 GTA--ATT
1 -TATTATT
1181547 TATTATT
1 TATTATT
1181554 TATTATT
1 TATTATT
1181561 T
1 T
1181562 TCATTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
5 2 0.06
6 3 0.10
7 24 0.77
8 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (7 bp):
TATTATT
Found at i:1182811 original size:4 final size:4
Alignment explanation
Indices: 1182802--1182829 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1182792 CAACATTTTC
1182802 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
1182830 ATTATTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:1182833 original size:3 final size:3
Alignment explanation
Indices: 1182825--1182907 Score: 112
Period size: 3 Copynumber: 27.7 Consensus size: 3
1182815 ATTTATTTAT
* *
1182825 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
1182873 TTA TTA TTG TTT TTG TTT TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1182908 TTGTTTTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1182922 original size:24 final size:25
Alignment explanation
Indices: 1182843--1182919 Score: 102
Period size: 24 Copynumber: 3.0 Consensus size: 25
1182833 ATTATTATTG
*
1182843 TTATTATTATTATTATTGTTATTATTA
1 TTATTATTATTATT-TTGTT-TTTTTA
* *
1182870 TTATTATTATTGTTTT-TGTTTTTA
1 TTATTATTATTATTTTGTTTTTTTA
1182894 TTATTATTATTATTTTGTTTTTTTA
1 TTATTATTATTATTTTGTTTTTTTA
1182919 T
1 T
1182920 ATTTCTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
24 20 0.45
25 9 0.20
26 2 0.05
27 13 0.30
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (25 bp):
TTATTATTATTATTTTGTTTTTTTA
Found at i:1182922 original size:27 final size:27
Alignment explanation
Indices: 1182843--1182922 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
1182833 ATTATTATTG
* *
1182843 TTATTATTATTATTA--TTGTTAT-TA
1 TTATTATTATTATTATTTTTTTTTATA
*
1182867 TTATTATTATTATTGTTTTTGTTTT-TA
1 TTATTATTATTATTATTTTT-TTTTATA
1182894 TTATTATTATTATT-TTGTTTTTTTATA
1 TTATTATTATTATTATT-TTTTTTTATA
1182921 TT
1 TT
1182923 TCTTTTATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 14 0.29
26 8 0.17
27 26 0.54
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (27 bp):
TTATTATTATTATTATTTTTTTTTATA
Found at i:1188898 original size:24 final size:24
Alignment explanation
Indices: 1188863--1188915 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1188853 ATGGGTACAT
1188863 AAAATAACTAATTAATTTATGTA-
1 AAAATAACTAATTAATTTATGTAC
*
1188886 AAAATAACTTAATTTATTTATGTAC
1 AAAATAAC-TAATTAATTTATGTAC
1188911 AAAAT
1 AAAAT
1188916 TCAGATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 8 0.30
24 14 0.52
25 5 0.19
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAATAACTAATTAATTTATGTAC
Found at i:1199798 original size:11 final size:11
Alignment explanation
Indices: 1199782--1199806 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1199772 AATACAAAAA
1199782 GAAGTGCAAGT
1 GAAGTGCAAGT
1199793 GAAGTGCAAGT
1 GAAGTGCAAGT
1199804 GAA
1 GAA
1199807 AGAATAAAAA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGTGCAAGT
Found at i:1209716 original size:18 final size:18
Alignment explanation
Indices: 1209693--1209745 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
1209683 GTTACAACTA
1209693 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
* *
1209711 GACCCGGCCCGTTGACCT
1 GACCCGACCCGTTGACCC
1209729 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
1209746 GTTGTTGGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.15, C:0.47, G:0.25, T:0.13
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:1212209 original size:24 final size:24
Alignment explanation
Indices: 1212182--1212295 Score: 158
Period size: 24 Copynumber: 4.8 Consensus size: 24
1212172 TCGATTTGAT
*
1212182 TTCTAATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
1212206 TTCTAATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
1212230 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
1212254 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
1212278 TTTTGATATGATACTTGA
1 TTCTGATCTGATACTTGA
1212296 TGTGAATTAT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 81 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:1212308 original size:24 final size:23
Alignment explanation
Indices: 1212187--1212313 Score: 94
Period size: 24 Copynumber: 5.3 Consensus size: 23
1212177 TTGATTTCTA
* * *
1212187 ATCTGATACTTGACATGGATTCTA
1 ATCTGATACTTGA-TTGGATTATG
* *
1212211 ATCTGATA-TCTGACATGGATTCTG
1 ATCTGATACT-TGA-TTGGATTATG
*
1212235 ATCTGATACTTGACTTGGATTCTG
1 ATCTGATACTTGA-TTGGATTATG
* *
1212259 ATCTGATACTTGACCTGGATTTTG
1 ATCTGATACTTGA-TTGGATTATG
* *
1212283 ATATGATACTTGATGTGAATTATG
1 ATCTGATACTTGAT-TGGATTATG
*
1212307 ATTTGAT
1 ATCTGAT
1212314 TTTTGATATA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.01
24 89 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (23 bp):
ATCTGATACTTGATTGGATTATG
Found at i:1214420 original size:13 final size:13
Alignment explanation
Indices: 1214402--1214426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1214392 CAACCCGACC
1214402 CGACCCGTTGACT
1 CGACCCGTTGACT
1214415 CGACCCGTTGAC
1 CGACCCGTTGAC
1214427 CATTGACCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:1216932 original size:24 final size:24
Alignment explanation
Indices: 1216902--1217016 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
1216892 TCGATTTGAT
*
1216902 TTCTGATCTAATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
* *
1216926 TTCTGATATGA-AATCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
1216950 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
1216974 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
1216998 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
1217017 GTGAATTATG
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.03
24 76 0.95
25 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:1216954 original size:12 final size:12
Alignment explanation
Indices: 1216917--1216955 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1216907 ATCTAATACT
1216917 TGACATGGATTC
1 TGACATGGATTC
* * *
1216929 TGATATGAAATC
1 TGACATGGATTC
1216941 TGACATGGATTC
1 TGACATGGATTC
1216953 TGA
1 TGA
1216956 TCTGATACTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:1217033 original size:24 final size:24
Alignment explanation
Indices: 1216905--1217033 Score: 116
Period size: 24 Copynumber: 5.4 Consensus size: 24
1216895 ATTTGATTTC
* * *
1216905 TGATCTAATACTTGACATGGATTC
1 TGATCTGATACTTGACCTGGATTA
* * * *
1216929 TGATATGA-AATCTGACATGGATTC
1 TGATCTGATACT-TGACCTGGATTA
* *
1216953 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACCTGGATTA
*
1216977 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACCTGGATTA
* * *
1217001 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGACCTGGATTA
*
1217025 TGATTTGAT
1 TGATCTGAT
1217034 TTTTGATATA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.02
24 86 0.96
25 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (24 bp):
TGATCTGATACTTGACCTGGATTA
Found at i:1224202 original size:18 final size:18
Alignment explanation
Indices: 1224179--1224220 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1224169 AATTTTCAAA
1224179 ACCACTATGTCCCAAAAG
1 ACCACTATGTCCCAAAAG
* *
1224197 ACCACTATGTCCCGAAGG
1 ACCACTATGTCCCAAAAG
1224215 ACCACT
1 ACCACT
1224221 TATAACCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (18 bp):
ACCACTATGTCCCAAAAG
Found at i:1224890 original size:22 final size:22
Alignment explanation
Indices: 1224872--1224923 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
1224862 ACCTGGTATT
1224872 GATACTACTACACTATGGTACC
1 GATACTACTACACTATGGTACC
1224894 GATACTACTACACTATGGTACC
1 GATACTACTACACTATGGTACC
1224916 GATACTAC
1 GATACTAC
1224924 CTTCCCAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (22 bp):
GATACTACTACACTATGGTACC
Found at i:1228044 original size:18 final size:18
Alignment explanation
Indices: 1228018--1228059 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1228008 TATGCTACTT
1228018 CATTT-AAGCATGC-ATTG
1 CATTTAAAGCAT-CTATTG
*
1228035 CATTTAAAGCATCTATTT
1 CATTTAAAGCATCTATTG
1228053 CATTTAA
1 CATTTAA
1228060 TAAAGTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (18 bp):
CATTTAAAGCATCTATTG
Found at i:1228088 original size:17 final size:17
Alignment explanation
Indices: 1228079--1228124 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
1228069 TTCATTATTT
1228079 AAACTAGTTCATAAATC
1 AAACTAGTTCATAAATC
*
1228096 AAACTAATTCATAAATC
1 AAACTAGTTCATAAATC
1228113 AAACTAGTTCAT
1 AAACTAGTTCAT
1228125 TTATTAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (17 bp):
AAACTAGTTCATAAATC
Found at i:1228133 original size:17 final size:17
Alignment explanation
Indices: 1228051--1228135 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
1228041 AAGCATCTAT
* *
1228051 TTCATTTAATAAAGTTAG
1 TTCATTTATTAAA-CTAG
1228069 TTCA-TTATTTAAACTAG
1 TTCATTTA-TTAAACTAG
** * *
1228086 TTCATAAATCAAACTAA
1 TTCATTTATTAAACTAG
** *
1228103 TTCATAAATCAAACTAG
1 TTCATTTATTAAACTAG
1228120 TTCATTTATTAAACTA
1 TTCATTTATTAAACTA
1228136 ACTCTTAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
17 46 0.84
18 9 0.16
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (17 bp):
TTCATTTATTAAACTAG
Found at i:1234729 original size:213 final size:214
Alignment explanation
Indices: 1234316--1234737 Score: 568
Period size: 215 Copynumber: 2.0 Consensus size: 214
1234306 TAGGCTCGAA
*
1234316 GAAAATAAAAAATCATCCATAAGAGGCATAAAAAATCCCAAAAACAGAAATACATATCTTAAATT
1 GAAAATAAAAAATCATCCATAAGAGGCATAAAAAATCCCAAAAACAGAAATAAATATCTTAAATT
* ** * * *
1234381 ATATTTATCATTGACCTGTCAAAACGAAAAAATAAAAAGATAAATATGTAAAAAGATGTCTTTAA
66 ATATTTATCAATGACAAGACAAAACAAAAAAATAAAAAAATAAATATGTAAAAAGATGTCTTTAA
* * *
1234446 CACGTGTGAACATAAACACAAATTCATTAGACATGCATCATATATATGGACTAAATCATAACCTT
131 CACGTGTGAACACAAACACAAATTCATTAGACATACATCA-ACATATGGACTAAATCATAACCTT
*
1234511 AACAACTCCATTCAATGTAG
195 AACAACACCATTCAATGTAG
* * * *
1234531 GAAAATGAAAAATCATCCA-AA-ACGG-ATTAAAAATCCC-AAAAGAGAAATAAATATCTTAATT
1 GAAAATAAAAAATCATCCATAAGA-GGCATAAAAAATCCCAAAAACAGAAATAAATATCTTAAAT
*
1234592 TATATTTATCAATGACAAGACAAAACAAAAAAATAAAAAAAATAATAATTATGT-GAAAGATGTC
65 TATATTTATCAATGACAAGACAAAACAAAAAAAT-AAAAAAAT-A-AA-TATGTAAAAAGATGTC
* * * *
1234656 TTTGACACTTGTGAACACAAACATAAATTGATTAGACATACATC-ACATATGGACTAAATCATAA
126 TTTAACACGTGTGAACACAAACACAAATTCATTAGACATACATCAACATATGGACTAAATCATAA
1234720 CCTTAACAACACCATTCA
191 CCTTAACAACACCATTCA
1234738 TTATGAAAAA
Statistics
Matches: 182, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
212 50 0.27
213 55 0.30
214 5 0.03
215 67 0.37
216 5 0.03
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.25
Consensus pattern (214 bp):
GAAAATAAAAAATCATCCATAAGAGGCATAAAAAATCCCAAAAACAGAAATAAATATCTTAAATT
ATATTTATCAATGACAAGACAAAACAAAAAAATAAAAAAATAAATATGTAAAAAGATGTCTTTAA
CACGTGTGAACACAAACACAAATTCATTAGACATACATCAACATATGGACTAAATCATAACCTTA
ACAACACCATTCAATGTAG
Found at i:1236512 original size:214 final size:215
Alignment explanation
Indices: 1235932--1236629 Score: 1055
Period size: 214 Copynumber: 3.3 Consensus size: 215
1235922 ATTTTATGAA
* * * * * * *
1235932 AAATACAAATTTAAGAATTAAATTGAACAAAAATGAAATTACAAATTAAAA--TAAATTAA--AC
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
* * *
1235993 AACACACATTGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAAGTAATAC-AAA
66 AACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAA
*
1236057 AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATT--AAAAATATAAACAAGTAATAAG
131 AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAATAAG
1236120 TATGGGTCAATTTCAGATGC
196 TATGGGTCAATTTCAGATGC
* ** * * *
1236140 AAATATAAGTTGGAGGACTAAATTAAACAAATATGAAACTACAAATAAAAATTTAAATAAATT-A
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
*
1236204 AACAACACA---A--AGTGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAA
66 AAC-ACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAA
*
1236264 AAAGTACTAAATTATACACATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAATAA
130 AAAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAATAA
1236329 GTAT-GGTCAATTTCAGATGC
195 GTATGGGTCAATTTCAGATGC
1236349 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1236414 AACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAA
66 AACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAA
* * *
1236479 AAATACTAAATTATACCCATTTAAAAGGTTATGGGCCAATTAAAAAAATATAAATAAGTAATATG
131 AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAATAAG
* *
1236544 TATGGGTCAATTTTATATGC
196 TATGGGTCAATTTCAGATGC
* *
1236564 AAATATAATTTTAAGGACTAAATTTATCAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1 AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
1236629 A
66 A
1236630 CAACACAAAG
Statistics
Matches: 442, Mismatches: 33, Indels: 23
0.89 0.07 0.05
Matches are distributed among these distances:
207 43 0.10
208 84 0.19
209 79 0.18
210 35 0.08
211 3 0.01
212 6 0.01
214 114 0.26
215 78 0.18
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (215 bp):
AAATATAATTTTAAGGACTAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAA
AACACACATTGATGAGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAA
AAGTACTAAATTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAAATAAGTAATAAG
TATGGGTCAATTTCAGATGC
Found at i:1236779 original size:20 final size:20
Alignment explanation
Indices: 1236754--1236817 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
1236744 TATATATATA
*
1236754 ATATAAACTATGTAGTTTAT
1 ATATAAAATATGTAGTTTAT
1236774 ATATAAAGTATATGTA-TTATAT
1 ATATAAA--ATATGTAGTT-TAT
* *
1236796 ATATAAATTATATAGTTTAT
1 ATATAAAATATGTAGTTTAT
1236816 AT
1 AT
1236818 TTATATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 17 0.46
21 4 0.11
22 16 0.43
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (20 bp):
ATATAAAATATGTAGTTTAT
Found at i:1236796 original size:22 final size:22
Alignment explanation
Indices: 1236736--1236822 Score: 74
Period size: 22 Copynumber: 4.0 Consensus size: 22
1236726 AAACAACTAT
*
1236736 AGTATATATATATATATAATATAA
1 AGTATATGTAT-TATAT-ATATAA
*
1236760 A--CTATGTAGTT-TATATATAA
1 AGTATATGTA-TTATATATATAA
1236780 AGTATATGTATTATATATATAA
1 AGTATATGTATTATATATATAA
* *
1236802 ATTATATAGT-TTATATTTATA
1 AGTATAT-GTATTATATATATA
1236823 TTATTATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.13
21 5 0.09
22 37 0.70
23 3 0.06
24 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (22 bp):
AGTATATGTATTATATATATAA
Found at i:1236800 original size:42 final size:44
Alignment explanation
Indices: 1236736--1236868 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 44
1236726 AAACAACTAT
*
1236736 AGTATATATATATATATAATATAAACTATGTAGTTTATATATAA
1 AGTATATATATATATATAATATAAACTATATAGTTTATATATAA
* * * *
1236780 AGTATATGTAT-TATAT-ATATAAATTATATAGTTTATATTTAT
1 AGTATATATATATATATAATATAAACTATATAGTTTATATATAA
* * *
1236822 ATTAT-TATATACA-AT-ATATAAACTATATA--TTATGTATAA
1 AGTATATATATATATATAATATAAACTATATAGTTTATATATAA
*
1236861 ACTATATA
1 AGTATATA
1236869 AACCATGTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 11 0.15
40 2 0.03
41 19 0.26
42 27 0.36
43 5 0.07
44 10 0.14
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (44 bp):
AGTATATATATATATATAATATAAACTATATAGTTTATATATAA
Found at i:1236850 original size:18 final size:18
Alignment explanation
Indices: 1236827--1236868 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1236817 TTTATATTAT
1236827 TATATACAATATATAAAC
1 TATATACAATATATAAAC
** *
1236845 TATATATTATGTATAAAC
1 TATATACAATATATAAAC
1236863 TATATA
1 TATATA
1236869 AACCATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
TATATACAATATATAAAC
Found at i:1236868 original size:2 final size:2
Alignment explanation
Indices: 1236733--1236851 Score: 52
Period size: 2 Copynumber: 59.5 Consensus size: 2
1236723 ATGAAACAAC
* * *
1236733 TA TA GTA TA TA TA TA TA TA TA -A TA TA AA CTA TG TA GTT TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
1236775 TA TA AA GTA TA TG TA T- TA TA TA TA TA AA T- TA TA TA GTT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
1236817 TT TA TA T- TA T- TA TA TA CA -A TA TA TA AA CTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T
1236852 TATGTATAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 24
0.67 0.15 0.19
Matches are distributed among these distances:
1 6 0.07
2 73 0.85
3 7 0.08
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1236886 original size:18 final size:18
Alignment explanation
Indices: 1236838--1236887 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
1236828 ATATACAATA
* **
1236838 TATAAACTATATATTATG
1 TATAAACTATAAACCATG
1236856 TATAAACTATATAAACCATG
1 TATAAAC--TATAAACCATG
1236876 TATAAACTATAA
1 TATAAACTATAA
1236888 TATTATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
20 15 0.56
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (18 bp):
TATAAACTATAAACCATG
Found at i:1236959 original size:22 final size:20
Alignment explanation
Indices: 1236919--1237089 Score: 91
Period size: 22 Copynumber: 8.4 Consensus size: 20
1236909 ACTATTGAAC
* * *
1236919 TATATAGAAACTACATAGTT
1 TATATATAAATTATATAGTT
1236939 TATTAATATAAATTATATAGTT
1 TA-T-ATATAAATTATATAGTT
*
1236961 TATATATAAATTATATATGAAT
1 TATATATAAATTATATA-G-TT
* * *
1236983 TATATATAAACTATACAATT
1 TATATATAAATTATATAGTT
* * *
1237003 TATATTTATA-TAT-TA-TG
1 TATATATAAATTATATAGTT
* * *
1237020 TATAATTATAAATAATA-AATA
1 TAT-A-TATAAATTATATAGTT
* *
1237041 T-TGTATAAATTATATAATT
1 TATATATAAATTATATAGTT
*
1237060 TATTAATATAAACTATATAGTT
1 TA-T-ATATAAATTATATAGTT
1237082 TATATATA
1 TATATATA
1237090 TAGTATATAT
Statistics
Matches: 116, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
17 4 0.03
18 12 0.10
19 11 0.09
20 34 0.29
21 7 0.06
22 48 0.41
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATATAAATTATATAGTT
Found at i:1236977 original size:13 final size:11
Alignment explanation
Indices: 1236940--1236997 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
1236930 TACATAGTTT
1236940 ATTA-ATATAA
1 ATTATATATAA
1236950 ATTATATAGT--
1 ATTATATA-TAA
1236960 -TTATATATAA
1 ATTATATATAA
*
1236970 ATTATATATGA
1 ATTATATATAA
1236981 ATTATATATAA
1 ATTATATATAA
*
1236992 ACTATA
1 ATTATA
1236998 CAATTTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 4 0.10
11 27 0.68
12 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (11 bp):
ATTATATATAA
Done.