Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_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: 1825372
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:710449 original size:16 final size:16
Alignment explanation
Indices: 710424--710482 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
710414 TAATAAATAA
*
710424 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
710440 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
710456 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
710472 ACGAACATAAA
1 ACGAACATAAA
710483 TGTTGGAGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:710483 original size:16 final size:16
Alignment explanation
Indices: 710416--710484 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
710406 CATTCATTTA
*
710416 ATAAAT-AA-ACGAAT
1 ATAAATGAACACGAAC
*
710430 ATAAACGAACACGAAC
1 ATAAATGAACACGAAC
*
710446 ATAAACGAACACGAAC
1 ATAAATGAACACGAAC
710462 ATAAATGAACACGAAC
1 ATAAATGAACACGAAC
710478 ATAAATG
1 ATAAATG
710485 TTGGAGACTC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 43 0.86
ACGTcount: A:0.58, C:0.17, G:0.12, T:0.13
Consensus pattern (16 bp):
ATAAATGAACACGAAC
Found at i:711256 original size:24 final size:23
Alignment explanation
Indices: 711195--711256 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
711185 GATTGGGTTA
*
711195 AACATAAATGAATGAACATAAACG
1 AACAT-AATGAACGAACATAAACG
*
711219 AACATAATCAAACGAACATAAACG
1 AACATAAT-GAACGAACATAAACG
711243 AACATAACTGAACG
1 AACATAA-TGAACG
711257 TTCACGAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 29 0.88
25 1 0.03
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.15
Consensus pattern (23 bp):
AACATAATGAACGAACATAAACG
Found at i:714425 original size:22 final size:20
Alignment explanation
Indices: 714397--714449 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
714387 TATTAATATA
714397 ATATTTAAGAAAATATATTAAT
1 ATATTTAAGAAAATAT-TT-AT
714419 ATATTTATA-AAAATATTTAT
1 ATATTTA-AGAAAATATTTAT
*
714439 TTATTT-AGAAA
1 ATATTTAAGAAA
714450 TATCAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 7 0.25
21 2 0.07
22 14 0.50
23 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATATTTAAGAAAATATTTAT
Found at i:714434 original size:20 final size:21
Alignment explanation
Indices: 714397--714445 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
714387 TATTAATATA
*
714397 ATATTTAAGAAAATATATTAAT
1 ATATTT-ATAAAATATATTAAT
*
714419 ATATTTATAAAA-ATATTTAT
1 ATATTTATAAAATATATTAAT
*
714439 TTATTTA
1 ATATTTA
714446 GAAATATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTTATAAAATATATTAAT
Found at i:714551 original size:21 final size:22
Alignment explanation
Indices: 714527--714573 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
714517 AAACATTTTC
714527 TTAAGATAATAAAA-ATTTATT
1 TTAAGATAATAAAATATTTATT
* *
714548 TTAATATAGTAAAATATTTATT
1 TTAAGATAATAAAATATTTATT
714570 TTAA
1 TTAA
714574 AAAAATATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTAAGATAATAAAATATTTATT
Found at i:714794 original size:2 final size:2
Alignment explanation
Indices: 714787--714833 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
714777 TTATTATTTA
714787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
714829 -T AT AT
1 AT AT AT
714834 TAATTTATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:714907 original size:16 final size:16
Alignment explanation
Indices: 714886--714918 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
714876 AGTAACAAAT
714886 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
714902 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
714918 T
1 T
714919 TTAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:716520 original size:2 final size:2
Alignment explanation
Indices: 716513--716537 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
716503 GAATTCTTTA
716513 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
716538 AAATTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:717366 original size:3 final size:3
Alignment explanation
Indices: 717347--717414 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
717337 TTGTAATATT
* *
717347 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* **
717394 AAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
717415 ATTTAAATGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:717786 original size:76 final size:76
Alignment explanation
Indices: 717545--718410 Score: 1545
Period size: 76 Copynumber: 11.4 Consensus size: 76
717535 GAAATGTTGA
* * * *
717545 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
717610 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
717622 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
717686 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
717697 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
717762 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
717773 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCTCCCTA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
717838 AGGCTTTTTGG
66 AGGCTTTTTGG
*
717849 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
717914 AGGCTTTTTGG
66 AGGCTTTTTGG
*
717925 AAACATCATGCACTGTAGGACTTACATATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
717990 AGGCTTTTTGG
66 AGGCTTTTTGG
718001 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
718066 AGGCTTTTTGG
66 AGGCTTTTTGG
** *
718077 AAACATCATGCACTACAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
718142 AGGCTTTTTGG
66 AGGCTTTTTGG
718153 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
718218 AGGCTTTTTTG
66 AGGCTTTTTGG
* *
718229 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
718294 AGGCTTTTTGG
66 AGGCTTTTTGG
*
718305 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
718370 AGGCTTTTTGG
66 AGGCTTTTTGG
*
718381 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
718411 TGGGAAATAG
Statistics
Matches: 764, Mismatches: 24, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 0.10
76 654 0.86
77 37 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:719277 original size:22 final size:22
Alignment explanation
Indices: 719252--719303 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
719242 CATAAAGCTT
*
719252 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
719274 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
719296 TCATCTTT
1 TCATCTTT
719304 TAAGAGTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:721893 original size:114 final size:114
Alignment explanation
Indices: 721693--721918 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
721683 GATCATGCAG
* * *
721693 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
721758 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
721807 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
721872 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCA
721919 TATGGCACTT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:724234 original size:15 final size:14
Alignment explanation
Indices: 724204--724250 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
724194 CAATTTTCCT
*
724204 TTTTTTTTTCTCTTC
1 TTTTTTCTT-TCTTC
724219 TTTTTCCTCTTT-TTC
1 TTTTT--TCTTTCTTC
724234 TTTTTTCTTTCTTC
1 TTTTTTCTTTCTTC
724248 TTT
1 TTT
724251 CTTTGTTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 5 0.18
14 6 0.21
15 13 0.46
16 1 0.04
17 3 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTTCTTTCTTC
Found at i:724555 original size:2 final size:2
Alignment explanation
Indices: 724548--724593 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
724538 ACAACAAAGG
724548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
724590 AT AT
1 AT AT
724594 TAAAGGATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:729254 original size:22 final size:24
Alignment explanation
Indices: 729211--729254 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
729201 AATAATATAA
729211 AAATAATAAGTAATAAAAAATTTG
1 AAATAATAAGTAATAAAAAATTTG
*
729235 AAATAA-AAG-AATTAAAAATT
1 AAATAATAAGTAATAAAAAATT
729255 AAATATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATAATAAGTAATAAAAAATTTG
Found at i:729751 original size:22 final size:20
Alignment explanation
Indices: 729723--729775 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
729713 TATTAATATA
729723 ATATTTAAGAAAATATATTAAT
1 ATATTTAAGAAAATAT-TT-AT
729745 ATATTTATA-AAAATATTTAT
1 ATATTTA-AGAAAATATTTAT
*
729765 TTATTT-AGAAA
1 ATATTTAAGAAA
729776 TATCAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 7 0.25
21 2 0.07
22 14 0.50
23 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATATTTAAGAAAATATTTAT
Found at i:729760 original size:20 final size:21
Alignment explanation
Indices: 729723--729771 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
729713 TATTAATATA
*
729723 ATATTTAAGAAAATATATTAAT
1 ATATTT-ATAAAATATATTAAT
*
729745 ATATTTATAAAA-ATATTTAT
1 ATATTTATAAAATATATTAAT
*
729765 TTATTTA
1 ATATTTA
729772 GAAATATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 5 0.21
22 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTTATAAAATATATTAAT
Found at i:729877 original size:21 final size:22
Alignment explanation
Indices: 729853--729899 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
729843 AAACATTTTC
729853 TTAAGATAATAA-AAATTTATT
1 TTAAGATAATAAGAAATTTATT
* * *
729874 TTAATATAGTAAGATATTTATT
1 TTAAGATAATAAGAAATTTATT
729896 TTAA
1 TTAA
729900 AAAAATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (22 bp):
TTAAGATAATAAGAAATTTATT
Found at i:730213 original size:16 final size:16
Alignment explanation
Indices: 730192--730224 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
730182 AGAAAAAAAT
730192 TAATA-TTATAAATAAA
1 TAATATTTA-AAATAAA
730208 TAATATTTAAAATAAA
1 TAATATTTAAAATAAA
730224 T
1 T
730225 TTAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATATTTAAAATAAA
Found at i:731502 original size:3 final size:3
Alignment explanation
Indices: 731483--731550 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
731473 TTGTAATATT
* *
731483 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
731530 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
731551 ATTTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:731555 original size:18 final size:18
Alignment explanation
Indices: 731521--731556 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
731511 ATAATAATAC
*
731521 TAATAATAATAATTTTAA
1 TAATAATAATAAATTTAA
731539 TAATAATAATAAATTTAA
1 TAATAATAATAAATTTAA
731557 ATGAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATAAATTTAA
Found at i:732320 original size:57 final size:57
Alignment explanation
Indices: 732258--732520 Score: 319
Period size: 57 Copynumber: 4.6 Consensus size: 57
732248 CCCAGAGCAA
* *
732258 CAACAATGATAATGCAAGTCAGGATGAGAACAATGATGCCATTCAGATCAATATCAG
1 CAACAATGATAATGCAAGTCAGAATGAGAACAATGATGCCATTCAGATCAATACCAG
* * * *
732315 CAACAATAATAAGGCATGTCAGAATGAGAACAATGATGCCGTTCAGATCAATACCAG
1 CAACAATGATAATGCAAGTCAGAATGAGAACAATGATGCCATTCAGATCAATACCAG
** * *
732372 CAACTGTGATAAGGCAAGTCAGAATGAGAACAATGATGCTATTCAGATCAATACCAG
1 CAACAATGATAATGCAAGTCAGAATGAGAACAATGATGCCATTCAGATCAATACCAG
* * * ** * ** * *
732429 CAATAATGAGAATGCAAGTCAGAATGAGAATAAAAATTCTGTTCAGATCAACACCAA
1 CAACAATGATAATGCAAGTCAGAATGAGAACAATGATGCCATTCAGATCAATACCAG
* * *
732486 CAACCATGAGAATGCAAGTGAGAATGAGAACAATG
1 CAACAATGATAATGCAAGTCAGAATGAGAACAATG
732521 CTGTTCAGAG
Statistics
Matches: 176, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 176 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (57 bp):
CAACAATGATAATGCAAGTCAGAATGAGAACAATGATGCCATTCAGATCAATACCAG
Found at i:732761 original size:54 final size:54
Alignment explanation
Indices: 732332--732879 Score: 285
Period size: 54 Copynumber: 10.0 Consensus size: 54
732322 AATAAGGCAT
* * * * * * * *
732332 GTCAGAATGAGAACAATGATGCCGTTCAGATCAATACCAGCAACTGTGATAAGGCAA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATC--GA-CACCAACAGTGAGAATGCAA
* * * * * * *
732389 GTCAGAATGAGAACAATGATGCTATTCAGATCAATACCAGCAATAATGAGAATGCAA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATC--GA-CACCAACAGTGAGAATGCAA
* * * * * *
732446 GTCAGAATGAGAATAAAAATTCTGTTCAGATCAACACCAACAACCATGAGAATGCAA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAAC-A--GTGAGAATGCAA
* * * * *** * **
732503 GTGAGAATGAGAAC---AATGCTGTTCAGAGC-ATTACCAACAACAAAAATGCCT
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGA-CACCAACAGTGAGAATGCAA
* * *
732554 GTCGGAATGAG---AATAATGCT-TCTCAGAACTATGACAACAATAACAGTGAGAATGCAA
1 GTCAGAATGAGAACAATAATGCTGT-TCA-AA-T-CGAC-AC--CAACAGTGAGAATGCAA
* * * * *
732611 GTCAGAATGAGAATAATAATGCTGTTCAAATCGACACCAACAATTAGAAAGCAG
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACAGTGAGAATGCAA
** * **
732665 GT-ATGAATGAGAAC---AATGCCT-CCCAGAATTACAACAATAACAGTGAGAATGCAA
1 GTCA-GAATGAGAACAATAATG-CTGTTCA-AA-T-CGACACCAACAGTGAGAATGCAA
* * * * * *
732719 CTAAGAATGAGAACAAAAATGCTGTTCAGATTGACACCAACAGCGAGAATGCAA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACAGTGAGAATGCAA
* *
732773 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACGGTGAGAATGTAA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACAGTGAGAATGCAA
* * * * * *
732827 CTCAGAATGAGAATAACAATGTTGTTCAAATCAACACCAACAATGAGAATGCA
1 GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACAGTGAGAATGCA
732880 GGTAACACTG
Statistics
Matches: 382, Mismatches: 80, Indels: 61
0.73 0.15 0.12
Matches are distributed among these distances:
50 1 0.00
51 31 0.08
52 5 0.01
53 4 0.01
54 183 0.48
55 7 0.02
56 5 0.01
57 130 0.34
58 1 0.00
59 2 0.01
60 12 0.03
61 1 0.00
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (54 bp):
GTCAGAATGAGAACAATAATGCTGTTCAAATCGACACCAACAGTGAGAATGCAA
Found at i:732892 original size:108 final size:110
Alignment explanation
Indices: 732587--732896 Score: 326
Period size: 108 Copynumber: 2.9 Consensus size: 110
732577 CAGAACTATG
* * *
732587 ACAACAATAACAGTGAGAATGCAAGTCAGAATGAGAATAATAATGCTGTTCAAATCGACACCAAC
1 ACAACAACAACAGTGAGAATGCAACTCAGAATGAGAATAAAAATGCTGTTCAAATCGACACCAAC
* * *
732652 AATTAGAAAGCAGGTATGAATGAGAAC--AATGCCTCCCAGAATT
66 AATGAGAATGCAGGTAAGAATGAGAACAAAATGCCTCCCAGAATT
* * * * *
732695 ACAACAATAACAGTGAGAATGCAACTAAGAATGAGAACAAAAATGCTGTTCAGATTGACACCAAC
1 ACAACAACAACAGTGAGAATGCAACTCAGAATGAGAATAAAAATGCTGTTCAAATCGACACCAAC
** * * **
732760 AGCGAGAATGCAAGTCAGAATGAGAACAATAATG-CTGTTCA-AA-T
66 AATGAGAATGCAGGTAAGAATGAGAACAA-AATGCCT-CCCAGAATT
* * * * * * *
732804 -CGACACCAACGGTGAGAATGTAACTCAGAATGAGAATAACAATGTTGTTCAAATCAACACCAAC
1 ACAACAACAACAGTGAGAATGCAACTCAGAATGAGAATAAAAATGCTGTTCAAATCGACACCAAC
* *
732868 AATGAGAATGCAGGTAACACTGAGAACAA
66 AATGAGAATGCAGGTAAGAATGAGAACAA
732897 CGCTGCTCAG
Statistics
Matches: 165, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
108 154 0.93
109 1 0.01
110 4 0.02
111 6 0.04
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (110 bp):
ACAACAACAACAGTGAGAATGCAACTCAGAATGAGAATAAAAATGCTGTTCAAATCGACACCAAC
AATGAGAATGCAGGTAAGAATGAGAACAAAATGCCTCCCAGAATT
Found at i:740224 original size:20 final size:20
Alignment explanation
Indices: 740201--740249 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
740191 TTACTTCTGG
740201 TATCGATAC-CTCCACATCAA
1 TATCGATACTCTCCA-ATCAA
*
740221 TATCGATACTTCTTCAATCAA
1 TATCGATAC-TCTCCAATCAA
740242 TATCGATA
1 TATCGATA
740250 TTGTTCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 13 0.50
22 4 0.15
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.33
Consensus pattern (20 bp):
TATCGATACTCTCCAATCAA
Found at i:751775 original size:21 final size:22
Alignment explanation
Indices: 751751--751844 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 22
751741 GTCGAGGGTT
751751 TTATGTGGTCATTCGA-GACAA
1 TTATGTGGTCATTCGAGGACAA
* *
751772 TTATATGGTCTTTC-AGGACAA
1 TTATGTGGTCATTCGAGGACAA
* * *
751793 ATATGT-GACACTTCGATG-CAAA
1 TTATGTGGTCA-TTCGAGGAC-AA
* *
751815 CCTATGTTGTCATTCG-GGACAA
1 -TTATGTGGTCATTCGAGGACAA
751837 TTATGTGG
1 TTATGTGG
751845 CACTTCGGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
20 3 0.06
21 31 0.57
22 7 0.13
23 10 0.19
24 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (22 bp):
TTATGTGGTCATTCGAGGACAA
Found at i:752601 original size:23 final size:23
Alignment explanation
Indices: 752575--752639 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
752565 TATAGCCTGA
* *
752575 ATGAGAGGTGCAAGGCATAGGGC
1 ATGAGAGGTGCAGGGCATAAGGC
* *
752598 ATGAGAGGTACAGGGTATAAGGC
1 ATGAGAGGTGCAGGGCATAAGGC
* *
752621 ATGGGAGATGCAGGGCATA
1 ATGAGAGGTGCAGGGCATA
752640 TGGCTTCTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.42, T:0.15
Consensus pattern (23 bp):
ATGAGAGGTGCAGGGCATAAGGC
Found at i:756553 original size:60 final size:60
Alignment explanation
Indices: 756460--756579 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
756450 ACTCGGCATC
*
756460 TGACCATCAGGCTATATAGAACACAATAAAAGTTTTAGAGATATTATAAAAGAAAAATAT
1 TGACCATCAGGCTATATAGAACACAATAAAAGTTTTAGAAATATTATAAAAGAAAAATAT
*
756520 TGACCATCAGGCTATATAGAACACAATAAAAGTTTTAGAAATATTATAAAAGTAAAATAT
1 TGACCATCAGGCTATATAGAACACAATAAAAGTTTTAGAAATATTATAAAAGAAAAATAT
756580 AGAAAGAGCC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (60 bp):
TGACCATCAGGCTATATAGAACACAATAAAAGTTTTAGAAATATTATAAAAGAAAAATAT
Found at i:761312 original size:25 final size:27
Alignment explanation
Indices: 761282--761359 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
761272 AATATATAAT
761282 AAATTATTAATAT-AATTAATATTAT-
1 AAATTATTAATATAAATTAATATTATG
** **
761307 CTATTATTTTTATAAATATAATATTATG
1 AAATTATTAATATAAAT-TAATATTATG
*
761335 AAATTATTAATAATGAA-TAATATTA
1 AAATTATTAAT-ATAAATTAATATTA
761360 ATTTATATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
25 9 0.22
26 3 0.08
27 17 0.43
28 7 0.17
29 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (27 bp):
AAATTATTAATATAAATTAATATTATG
Found at i:761377 original size:19 final size:19
Alignment explanation
Indices: 761355--761406 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
761345 TAATGAATAA
*
761355 TATTAAT-TTATATATTTAG
1 TATTAATGTAATA-ATTTAG
761374 TATTAATGTAATAATTTAG
1 TATTAATGTAATAATTTAG
761393 TATT-ATGTTAATAA
1 TATTAATG-TAATAA
761407 AATACTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 3 0.10
19 23 0.77
20 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (19 bp):
TATTAATGTAATAATTTAG
Found at i:761726 original size:30 final size:30
Alignment explanation
Indices: 761685--761792 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
761675 CCAGAAAATA
* *
761685 TAATTCATTTTACGTAAAACAATTTTTATG
1 TAATCCATTTTACGTAAAACAATTTTCATG
* *
761715 TAATCCATTTTACGTAAAAGAGTTTTCATG
1 TAATCCATTTTACGTAAAACAATTTTCATG
* *
761745 TAA-CTCATTTTACGTAAAATAATTTTCAGG
1 TAATC-CATTTTACGTAAAACAATTTTCATG
* *
761775 TAATTCATTTTCCGTAAA
1 TAATCCATTTTACGTAAA
761793 TTATTTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.01
30 66 0.99
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (30 bp):
TAATCCATTTTACGTAAAACAATTTTCATG
Found at i:761755 original size:15 final size:15
Alignment explanation
Indices: 761689--761799 Score: 52
Period size: 15 Copynumber: 7.5 Consensus size: 15
761679 AAAATATAAT
761689 TCATTTT-ACGTAAA
1 TCATTTTCACGTAAA
* * *
761703 ACAATTTTTATGT-AA
1 TC-ATTTTCACGTAAA
761718 TCCATTTT-ACGTAAA
1 T-CATTTTCACGTAAA
** * *
761733 AGAGTTTTCATGTAAC
1 TCA-TTTTCACGTAAA
761749 TCATTTT-ACGTAAAA
1 TCATTTTCACGT-AAA
* * *
761764 TAATTTTCAGGTAAT
1 TCATTTTCACGTAAA
761779 TCATTTTC-CGTAAA
1 TCATTTTCACGTAAA
*
761793 TTATTTT
1 TCATTTT
761800 TTAAAAAATC
Statistics
Matches: 70, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
14 18 0.26
15 39 0.56
16 13 0.19
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (15 bp):
TCATTTTCACGTAAA
Found at i:768524 original size:21 final size:21
Alignment explanation
Indices: 768498--768538 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
768488 CCATAAACAA
*
768498 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCAATGCAT
768519 TGCTACAGTGCATCAATGCA
1 TGCTACAGTGCATCAATGCA
768539 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGCATCAATGCAT
Found at i:769135 original size:24 final size:24
Alignment explanation
Indices: 769108--769180 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
769098 AACTTGTATA
*
769108 AATTTGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCTACGTAG
*
769132 AATTTGTC-CCGAAG-GACTGCGTAG
1 AATTTG-CACCGAAGTG-CTACGTAG
*
769156 AA-ATGCACCGAAGTGCTACGTAG
1 AATTTGCACCGAAGTGCTACGTAG
769179 AA
1 AA
769181 ATGCATCGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.02
23 18 0.44
24 21 0.51
25 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCTACGTAG
Found at i:769177 original size:23 final size:23
Alignment explanation
Indices: 769112--769185 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
769102 TGTATAAATT
* *
769112 TGCACCGAAGTGCCACGTAGAATT
1 TGCACCGAAGTGCTACGTAGAA-A
*
769136 TGTC-CCGAAG-GACTGCGTAGAAA
1 TG-CACCGAAGTG-CTACGTAGAAA
769159 TGCACCGAAGTGCTACGTAGAAA
1 TGCACCGAAGTGCTACGTAGAAA
769182 TGCA
1 TGCA
769186 TCGTAGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
22 1 0.02
23 23 0.55
24 17 0.40
25 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCTACGTAGAAA
Found at i:769473 original size:30 final size:30
Alignment explanation
Indices: 769439--769501 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
769429 TTATATCGCG
*
769439 TAGACATATTATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
*
769469 TAGACATATCATTTCTATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
769499 TAG
1 TAG
769502 CTCATATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
TAGACATATCATTTCCATACCTTTATCACA
Found at i:769956 original size:21 final size:21
Alignment explanation
Indices: 769930--769984 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
769920 AATTTTGTCT
769930 TAGTGCGTCGATGCCCATTCA
1 TAGTGCGTCGATGCCCATTCA
769951 TAGTGCGTCGATG-CCATTCA
1 TAGTGCGTCGATGCCCATTCA
*
769971 TAGTGCATCGATGC
1 TAGTGCGTCGATGC
769985 ACATGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (21 bp):
TAGTGCGTCGATGCCCATTCA
Found at i:771726 original size:10 final size:10
Alignment explanation
Indices: 771681--771727 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
771671 TTTTGGGGTG
*
771681 TTCTAGAATA
1 TTCTAGAGTA
*
771691 TTCTAAAGTA
1 TTCTAGAGTA
*
771701 TTCTA-AGATC
1 TTCTAGAG-TA
771711 TTCTAGAGTA
1 TTCTAGAGTA
771721 TTCTAGA
1 TTCTAGA
771728 ACCTTCCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (10 bp):
TTCTAGAGTA
Found at i:771733 original size:20 final size:20
Alignment explanation
Indices: 771681--771747 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
771671 TTTTGGGGTG
*
771681 TTCTAGAATATTCTAAAGTA
1 TTCTAGAATCTTCTAAAGTA
*
771701 TTCTA-AGATCTTCTAGAGTA
1 TTCTAGA-ATCTTCTAAAGTA
* *
771721 TTCTAGAACCTTCCATAAG-A
1 TTCTAGAATCTTCTA-AAGTA
771741 TTCTAGA
1 TTCTAGA
771748 TATTTTATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 35 0.90
21 3 0.08
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
TTCTAGAATCTTCTAAAGTA
Found at i:772287 original size:39 final size:39
Alignment explanation
Indices: 772244--772327 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
772234 AGCTAAATAT
* *
772244 GAAGACTCCACGACTGTATGGCGTCTTCAGGCAAA-TGAA
1 GAAGACTCCACGACTGCATGACGTCTTCAGGCAAATTG-A
*
772283 GAAGACTCCACGACTGCATGACGTCTTCTGGCAAATTGA
1 GAAGACTCCACGACTGCATGACGTCTTCAGGCAAATTGA
772322 GAAGAC
1 GAAGAC
772328 CCCAAGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 39 0.95
40 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (39 bp):
GAAGACTCCACGACTGCATGACGTCTTCAGGCAAATTGA
Found at i:784593 original size:18 final size:18
Alignment explanation
Indices: 784570--784604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
784560 AGGGGAGATA
784570 GAAGAGCAAGAAGAAAAC
1 GAAGAGCAAGAAGAAAAC
* *
784588 GAAGAGGAAGAGGAAAA
1 GAAGAGCAAGAAGAAAA
784605 GAGATAAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (18 bp):
GAAGAGCAAGAAGAAAAC
Found at i:785070 original size:20 final size:20
Alignment explanation
Indices: 785045--785087 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
785035 TCTTTCATCT
*
785045 TTTGTCTAAATCCACTATTA
1 TTTGTCTAAATCCACTATCA
785065 TTTGTCTAAATCCACTATCA
1 TTTGTCTAAATCCACTATCA
785085 TTT
1 TTT
785088 AGAGTGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTGTCTAAATCCACTATCA
Found at i:785901 original size:20 final size:20
Alignment explanation
Indices: 785878--785945 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
785868 GAATATGTAA
*
785878 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
785898 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
785918 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
785938 GTCGCAAC
1 ATCGCAAC
785946 ACTGAAATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:785903 original size:40 final size:40
Alignment explanation
Indices: 785854--785945 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
785844 GCGATTTTCA
* *
785854 GACTATCGCAATGCGAATATGTA-AATCGCAATGCGATTCT
1 GACTATCGCAACGCGAATATG-ACAATCGCAACGCGATTCT
* * *
785894 GACTATCGCAACGCGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGAATATGACAATCGCAACGCGATTCT
*
785934 GACTGTCGCAAC
1 GACTATCGCAAC
785946 ACTGAAATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
GACTATCGCAACGCGAATATGACAATCGCAACGCGATTCT
Found at i:786817 original size:24 final size:24
Alignment explanation
Indices: 786766--786819 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
786756 GTATTCGAAA
*
786766 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
786790 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
786814 TTTGAT
1 TTTGAT
786820 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:787038 original size:14 final size:14
Alignment explanation
Indices: 787009--787045 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
786999 AGAAAAAGAA
787009 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
787024 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
787038 GAAGAAAA
1 GAAGAAAA
787046 TGCCATGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:789104 original size:18 final size:18
Alignment explanation
Indices: 789081--789115 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
789071 AGAAAAAGGC
*
789081 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
789099 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
789116 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:789427 original size:140 final size:140
Alignment explanation
Indices: 789175--789584 Score: 784
Period size: 140 Copynumber: 2.9 Consensus size: 140
789165 AAACGTTGTA
*
789175 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGCTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
789240 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
789305 TATGTGTATT
131 TATGTGTATT
789315 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
789380 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
789445 TATGTGTATT
131 TATGTGTATT
* *
789455 TTATGTGTAAACTTTTAACATTTTCAATTAGGCATGTATTAGTAACTTGAGTTTGAATATTGCTA
1 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
789520 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACACGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
789585 CGCAATGCGA
Statistics
Matches: 266, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 266 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (140 bp):
TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:789580 original size:20 final size:20
Alignment explanation
Indices: 789555--789812 Score: 212
Period size: 20 Copynumber: 13.8 Consensus size: 20
789545 TTACACATTC
* *
789555 ATTTGAATATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
789575 ATTTGACTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
* *
789595 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
789614 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
789629 ATTTGACTATCACAACACGA
1 ATTTGACTATCGCAACGCGA
*
789649 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
*
789668 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
789683 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
789703 ATTTGATTATCGCAACAG-GT
1 ATTTGACTATCGCAAC-GCGA
789723 ATTTGACTATCGCAA--C-A
1 ATTTGACTATCGCAACGCGA
** *
789740 A---GAAAATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
789757 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
789777 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
789797 ATTTGATTATTGCAAC
1 ATTTGACTATCGCAAC
789813 TGGTATTTGA
Statistics
Matches: 189, Mismatches: 29, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
14 28 0.15
15 6 0.03
16 1 0.01
17 3 0.02
19 6 0.03
20 144 0.76
21 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:789650 original size:54 final size:54
Alignment explanation
Indices: 789563--789718 Score: 249
Period size: 54 Copynumber: 2.9 Consensus size: 54
789553 TCATTTGAAT
* * *
789563 ATCGCAACACGAATTTGACTATCGCAATGCGAATTTGATTATCGCAACTCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAA
* * * *
789617 ATCGCAACGCGAATTTGACTATCACAACACGAATATGACTATCGCAACGCAAAA
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAA
789671 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAAC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAAC
789719 AGGTATTTGA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (54 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGCAAAA
Found at i:789695 original size:74 final size:74
Alignment explanation
Indices: 789617--789812 Score: 277
Period size: 74 Copynumber: 2.6 Consensus size: 74
789607 CAACTCAAAA
* * * *
789617 ATCGCAACGCGAATTTGACTATCACAACACGAATATGACTATCGCAACGCA-AAAATCGCAACGC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAAC-AAGAAAATCGCAACAC
789681 GAATTTGACT
65 GAATTTGACT
* * *
789691 ATCGCAACGCGAATTTGATTATCGCAACAGGTATTTGACTATCGCAACAAGAAAATCGCAACACG
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACAAGAAAATCGCAACACG
789756 AATTTGACT
66 AATTTGACT
* * * *
789765 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGATTATTGCAAC
1 ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAAC
789813 TGGTATTTGA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 1 0.01
74 106 0.99
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACACGAATTTGACTATCGCAACAAGAAAATCGCAACACG
AATTTGACT
Found at i:789739 original size:94 final size:93
Alignment explanation
Indices: 789629--789842 Score: 234
Period size: 94 Copynumber: 2.3 Consensus size: 93
789619 CGCAACGCGA
* *
789629 ATTTGACTATCACAACACGAATAT-G-ACTATCGCAACGCAAAAATCGCAACGCGAATTTGACTA
1 ATTTGACTATCACAACAAGAAAATCGAAC-A-CG-AACGCAAAAATCGCAACGCGAATTTGACTA
789692 TCGCAACGCGAATTTGATTATCGCAACAGGT
63 TCGCAACGCGAATTTGATTATCGCAACAGGT
* **** ** *
789723 ATTTGACTATCGCAACAAGAAAATCGCAACACGAATTTGACTATCGCAACGTGAATTTGACTATC
1 ATTTGACTATCACAACAAGAAAATCG-AACACGAACGCAAAAATCGCAACGCGAATTTGACTATC
* *
789788 GCAACGCGAATTTGATTATTGCAACTGGT
65 GCAACGCGAATTTGATTATCGCAACAGGT
* ** *
789817 ATTTGACTTTTGCAACGAGAAAATCG
1 ATTTGACTATCACAACAAGAAAATCG
789843 CAAAGCATAT
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
94 96 0.94
95 3 0.03
96 1 0.01
97 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (93 bp):
ATTTGACTATCACAACAAGAAAATCGAACACGAACGCAAAAATCGCAACGCGAATTTGACTATCG
CAACGCGAATTTGATTATCGCAACAGGT
Found at i:789833 original size:40 final size:40
Alignment explanation
Indices: 789555--789812 Score: 185
Period size: 34 Copynumber: 6.9 Consensus size: 40
789545 TTACACATTC
* * * *
789555 ATTTGAATATCGCAACACGAATTTGACTATCGCAATGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* * * *
789595 ATTTGATTATCGCAACTC-AA----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* * * *
789629 ATTTGACTATCACAACACGAATATGACTATCGCAACG-CA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* *
789668 A----A-AATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* *
789703 ATTTGATTATCGCAACAG-GTATTTGACTATCGCAAC---A
1 ATTTGACTATCGCAAC-GCGAATTTGACTATCGCAACGTGA
** *
789740 A---GAAAATCGCAACACGAATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* *
789777 ATTTGACTATCGCAACGCGAATTTGATTATTGCAAC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAAC
789813 TGGTATTTGA
Statistics
Matches: 173, Mismatches: 25, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
34 79 0.46
35 6 0.03
37 4 0.02
39 6 0.03
40 77 0.45
41 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (40 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
Found at i:789843 original size:94 final size:94
Alignment explanation
Indices: 789671--789882 Score: 304
Period size: 94 Copynumber: 2.3 Consensus size: 94
789661 CAACGCAAAA
789671 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACAGGTATTTGACTATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACAGGTATTTGACTATCGC
789736 AACAAGAAAATCGCAACACGAATTTGACT
66 AACAAGAAAATCGCAACACGAATTTGACT
* * * * *
789765 ATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGATTATTGCAACTGGTATTTGACTTTTGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACAGGTATTTGACTATCGC
* *
789830 AACGAGAAAATCGCAA-A-GCATATTAGACT
66 AACAAGAAAATCGCAACACG-A-ATTTGACT
* *
789859 ATCGCAATGCGAA-TTGACTTTCGC
1 ATCGCAACGCGAATTTGACTATCGC
789883 GTTGCGATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
92 1 0.01
93 12 0.11
94 93 0.88
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (94 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACAGGTATTTGACTATCGC
AACAAGAAAATCGCAACACGAATTTGACT
Found at i:789901 original size:20 final size:21
Alignment explanation
Indices: 789872--789929 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
789862 GCAATGCGAA
789872 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
789892 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
789912 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
789930 AAGTGTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:790088 original size:14 final size:14
Alignment explanation
Indices: 790028--790089 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
790018 TACAAATAAT
*
790028 AATTATTTACACATC
1 AATT-TTTACAAATC
**
790043 AATGTTAAACAAATC
1 AAT-TTTTACAAATC
*
790058 AACTTTTACAAATC
1 AATTTTTACAAATC
*
790072 AATTTTTATAAATC
1 AATTTTTACAAATC
790086 AATT
1 AATT
790090 AAACAATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:791521 original size:42 final size:41
Alignment explanation
Indices: 791414--791525 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
791404 TCTAGAATGT
* * *
791414 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** *
791456 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGA-GGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
791498 TAAGGGA-GGCCTCTTGAACGATGACAGG
1 T--GGGAGGGCCTCTTGAACGATGACAGG
791526 TGAGTCGGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 49 0.88
43 3 0.05
44 4 0.07
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.21
Consensus pattern (41 bp):
TGGGAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:792034 original size:18 final size:19
Alignment explanation
Indices: 792011--792056 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
792001 GAAACTTAAA
792011 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
792029 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
*
792049 ATTGCAAC
1 ATCGCAAC
792057 GAGAGAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
20 14 0.58
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:792125 original size:20 final size:20
Alignment explanation
Indices: 792100--792167 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
792090 GCGATTCTTT
**
792100 CGTTGCAATAGTCAAATTCG
1 CGTTGCAATAGTCATTTTCG
*
792120 CGTTGCGATAGTCATTTTCG
1 CGTTGCAATAGTCATTTTCG
*
792140 CGTTGCGATAGTCATTTTCG
1 CGTTGCAATAGTCATTTTCG
*
792160 CATTGCAA
1 CGTTGCAA
792168 AAGTAAACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCAATAGTCATTTTCG
Found at i:794129 original size:19 final size:20
Alignment explanation
Indices: 794070--794156 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
794060 TCTGAAACTT
794070 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
794090 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
794110 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
794129 AAAATCGCAACGC-AAAACT-
1 AAAATCGCAACACGAAAA-TG
794148 AAAATCGCA
1 AAAATCGCA
794157 TTGCGATTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
19 28 0.47
20 32 0.53
ACGTcount: A:0.51, C:0.23, G:0.15, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:794569 original size:22 final size:22
Alignment explanation
Indices: 794531--794594 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
794521 TCTGAGAGAT
794531 GGAGATA--GACGGATTTCGCC
1 GGAGATAGGGACGGATTTCGCC
* * *
794551 GGAGATGGGGACTGATTTCGTC
1 GGAGATAGGGACGGATTTCGCC
*
794573 GGAGATAGGGACGGATGTCGCC
1 GGAGATAGGGACGGATTTCGCC
794595 TTAGAGAGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 6 0.17
22 29 0.83
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (22 bp):
GGAGATAGGGACGGATTTCGCC
Found at i:794790 original size:20 final size:20
Alignment explanation
Indices: 794760--794833 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
794750 GTGCTTTGAA
* *
794760 AATCGCATTGCGTTAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
794780 CATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
794800 AATCGCGTTGCGATAGTCAT
1 AATCGCGTTGCGATAGTCAG
*
794820 AATCGCATTGCGAT
1 AATCGCGTTGCGAT
794834 TTACATATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:794851 original size:40 final size:40
Alignment explanation
Indices: 794760--794857 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
794750 GTGCTTTGAA
* * *
794760 AATCGCATTGCGTTAGTCAGCATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGATAGTCAG
* * * *
794800 AATCGCGTTGCGATAGTCATAATCGCATTGCGAT-TTACAT
1 AATCGCATTGCGATAGTCAGAATCGCATTGCGATAGT-CAG
*
794840 ATTCGCATTGCGATAGTC
1 AATCGCATTGCGATAGTC
794858 GGAAAATCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (40 bp):
AATCGCATTGCGATAGTCAGAATCGCATTGCGATAGTCAG
Found at i:799677 original size:28 final size:28
Alignment explanation
Indices: 799630--799696 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
799620 CAATTTATAG
* *
799630 GTAAAAT-AATATAAAATGATATGTAAC
1 GTAAAATAAATAAAAAATGATATATAAC
799657 GTAAAATAAATAAAAAATGATATATAAC
1 GTAAAATAAATAAAAAATGATATATAAC
*
799685 ATAAAATAAATA
1 GTAAAATAAATA
799697 TTTATTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.27
Consensus pattern (28 bp):
GTAAAATAAATAAAAAATGATATATAAC
Found at i:802126 original size:2 final size:2
Alignment explanation
Indices: 802121--802159 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
802111 AGAGAGGACT
*
802121 GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
802160 CGTTTTGTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:802840 original size:32 final size:32
Alignment explanation
Indices: 802804--802866 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
802794 TAGATATTGT
**
802804 ATTATT-TTTTCGAATGATGTAATATATGTCAC
1 ATTATTATTTT-GAATGAAATAATATATGTCAC
*
802836 ATTATTATTTTGAATGAAATATTATATGTCA
1 ATTATTATTTTGAATGAAATAATATATGTCA
802867 TATCATCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (32 bp):
ATTATTATTTTGAATGAAATAATATATGTCAC
Found at i:809737 original size:29 final size:29
Alignment explanation
Indices: 809694--809776 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
809684 CTCACCTAAC
*
809694 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
809724 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
809753 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
809777 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:814499 original size:29 final size:29
Alignment explanation
Indices: 814456--814538 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
814446 CTCACCTAAC
*
814456 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
814486 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
814515 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
814539 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:816342 original size:13 final size:15
Alignment explanation
Indices: 816326--816357 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
816316 GCTCTCTCAA
816326 TTCTCTC-TAT-TTT
1 TTCTCTCGTATATTT
816339 TTCTCTCGTATATTT
1 TTCTCTCGTATATTT
816354 TTCT
1 TTCT
816358 TTTGCTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.09, C:0.22, G:0.03, T:0.66
Consensus pattern (15 bp):
TTCTCTCGTATATTT
Found at i:822818 original size:31 final size:31
Alignment explanation
Indices: 822783--822906 Score: 115
Period size: 31 Copynumber: 4.0 Consensus size: 31
822773 TCTCGACAAC
* *
822783 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* ** * *
822814 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* *
822845 TGTCCATATGTCTCGAA-AGACATAGGTAATT
1 TGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* * *
822876 ATGTCCATATATTCCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCGAAGAACATAGGTAAA
822907 CCCTCGACTC
Statistics
Matches: 71, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.01
31 46 0.65
32 23 0.32
33 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:822899 original size:63 final size:62
Alignment explanation
Indices: 822781--822904 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
822771 AATCTCGACA
* * *
822781 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAAGAACATAGGTAAATTGTCCATATATTCCGTAGAACATAGGTAT
* * *
822843 ACTGTCCATATGTCTCGAA-AGACATAGGTAATTATGTCCATATATTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTCCCGAAGA-ACATAGGTAAAT-TGTCCATATATTCCGTAGAACATAGGTA
822905 AACCCTCGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 27 0.50
63 26 0.48
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (62 bp):
ACTGTCCATAGGTCCCGAAGAACATAGGTAAATTGTCCATATATTCCGTAGAACATAGGTAT
Found at i:823716 original size:19 final size:19
Alignment explanation
Indices: 823689--823740 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
823679 ATTCACACAT
*
823689 ATTATTAACACATGCAACA
1 ATTAATAACACATGCAACA
*
823708 ATTAATAACACACATGTAACA
1 ATTAAT-A-ACACATGCAACA
*
823729 ATCAATAACACA
1 ATTAATAACACA
823741 CATGTAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 16 0.57
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.23
Consensus pattern (19 bp):
ATTAATAACACATGCAACA
Found at i:823722 original size:21 final size:21
Alignment explanation
Indices: 823696--823755 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
823686 CATATTATTA
* *
823696 ACACATGCAACAATTAATAAC
1 ACACATGTAACAATCAATAAC
823717 ACACATGTAACAATCAATAAC
1 ACACATGTAACAATCAATAAC
823738 ACACATGTAACATATCAA
1 ACACATGTAACA-ATCAA
823756 ACAAATGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
ACACATGTAACAATCAATAAC
Found at i:824112 original size:24 final size:23
Alignment explanation
Indices: 824048--824112 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 23
824038 TTTCTATTTC
824048 CCCTTAA-AGTGCATCGATGCAT
1 CCCTTAACAGTGCATCGATGCAT
* *
824070 -TC-T-ACAGTGTATCGATGCAT
1 CCCTTAACAGTGCATCGATGCAT
824090 CCCTTAACATGTGCATCGATGCA
1 CCCTTAACA-GTGCATCGATGCA
824113 CTCCTTATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.03
20 15 0.44
21 2 0.06
22 1 0.03
23 3 0.09
24 12 0.35
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (23 bp):
CCCTTAACAGTGCATCGATGCAT
Found at i:824118 original size:24 final size:22
Alignment explanation
Indices: 824049--824119 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 22
824039 TTCTATTTCC
824049 CCTTAA-AGTGCATCGATGCAT
1 CCTTAACAGTGCATCGATGCAT
* *
824070 TC-T-ACAGTGTATCGATGCAT
1 CCTTAACAGTGCATCGATGCAT
824090 CCCTTAACATGTGCATCGATGCACT
1 -CCTTAACA-GTGCATCGATGCA-T
824115 CCTTA
1 CCTTA
824120 TGCATCGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.03
20 15 0.38
21 2 0.05
22 1 0.03
23 3 0.08
24 17 0.43
25 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (22 bp):
CCTTAACAGTGCATCGATGCAT
Found at i:827146 original size:31 final size:31
Alignment explanation
Indices: 827108--827231 Score: 115
Period size: 31 Copynumber: 4.0 Consensus size: 31
827098 CCTCAGCAAC
* *
827108 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* ** * *
827139 TGTCCATATGTTCCTTAGAACATAGGTATAC
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* *
827170 TGTCCATATGTCTCGAA-AGACATAGGTAATT
1 TGTCCATATGTCCCGAAGA-ACATAGGTAAAT
* * *
827201 ATGTCCATATATTCCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCGAAGAACATAGGTAAA
827232 CCCTCGACTC
Statistics
Matches: 71, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.01
31 46 0.65
32 23 0.32
33 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:827196 original size:62 final size:63
Alignment explanation
Indices: 827106--827229 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 63
827096 AACCTCAGCA
* * *
827106 ACTGTCCATAGGTCCCGAAGAACCTAGGTAAAT-TGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATAGGTCCCGAAGAACATAGGTAAATATGTCCATATATTCCGTAGAACATAGGTAT
* * *
827168 ACTGTCCATATGTCTCGAA-AGACATAGGTAATTATGTCCATATATTCCGTAGAACATAGGTA
1 ACTGTCCATAGGTCCCGAAGA-ACATAGGTAAATATGTCCATATATTCCGTAGAACATAGGTA
827230 AACCCTCGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
61 1 0.02
62 27 0.50
63 26 0.48
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (63 bp):
ACTGTCCATAGGTCCCGAAGAACATAGGTAAATATGTCCATATATTCCGTAGAACATAGGTAT
Found at i:828062 original size:23 final size:23
Alignment explanation
Indices: 828036--828085 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
828026 CATATTATTA
828036 ACATATGCAACAATCAATAACAC
1 ACATATGCAACAATCAATAACAC
*
828059 AC--ATGTAACAATCAATAACAC
1 ACATATGCAACAATCAATAACAC
828080 ACATAT
1 ACATAT
828086 AACATATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 20 0.83
23 4 0.17
ACGTcount: A:0.52, C:0.24, G:0.04, T:0.20
Consensus pattern (23 bp):
ACATATGCAACAATCAATAACAC
Found at i:828069 original size:21 final size:21
Alignment explanation
Indices: 828044--828095 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
828034 TAACATATGC
*
828044 AACAATCAATAACACACATGT
1 AACAATCAATAACACACATAT
828065 AACAATCAATAACACACATAT
1 AACAATCAATAACACACATAT
828086 AACATATCAA
1 AACA-ATCAA
828096 ACAGATGCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (21 bp):
AACAATCAATAACACACATAT
Found at i:828452 original size:24 final size:20
Alignment explanation
Indices: 828395--828472 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
828385 TTCCCCTTGA
*
828395 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
828415 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
828438 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
828459 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
828473 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:832950 original size:22 final size:22
Alignment explanation
Indices: 832922--832983 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
832912 GACTTATTAT
832922 TTTCGGTGGATTTAATTCCACC
1 TTTCGGTGGATTTAATTCCACC
832944 TTTCGGTGGATTTAATTCCACC
1 TTTCGGTGGATTTAATTCCACC
832966 TTTCGGTGGATTTTAATT
1 TTTCGGTGGA-TTTAATT
832984 TTCAACAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
22 32 0.82
23 7 0.18
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (22 bp):
TTTCGGTGGATTTAATTCCACC
Found at i:845157 original size:13 final size:13
Alignment explanation
Indices: 845139--845166 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
845129 AGCAATGAGA
845139 GCACCCCCTGCCT
1 GCACCCCCTGCCT
845152 GCACCCCCTGCCT
1 GCACCCCCTGCCT
845165 GC
1 GC
845167 TACAGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.61, G:0.18, T:0.14
Consensus pattern (13 bp):
GCACCCCCTGCCT
Found at i:845735 original size:9 final size:9
Alignment explanation
Indices: 845723--845756 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
845713 TAATATTTTG
845723 TATTTAATT
1 TATTTAATT
*
845732 TATTTAA-G
1 TATTTAATT
845740 TATTTAATT
1 TATTTAATT
845749 TATTTAAT
1 TATTTAAT
845757 ATTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:845744 original size:17 final size:17
Alignment explanation
Indices: 845722--845766 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
845712 TTAATATTTT
845722 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
845739 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
*
845756 -TATTTTATTTA
1 GTATTTAATTTA
845767 ATTATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:845765 original size:16 final size:16
Alignment explanation
Indices: 845723--845776 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
845713 TAATATTTTG
845723 TATTTAATTTATTTAA
1 TATTTAATTTATTTAA
845739 GTATTTAATTTATTTAA
1 -TATTTAATTTATTTAA
* * *
845756 TATTTTATTTAATTAT
1 TATTTAATTTATTTAA
845772 TATTT
1 TATTT
845777 TTGCAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 18 0.53
17 16 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTAATTTATTTAA
Found at i:853975 original size:2 final size:2
Alignment explanation
Indices: 853968--854029 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
853958 ATTCATAATC
853968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
854010 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
854030 TAGGGTATAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:854456 original size:24 final size:24
Alignment explanation
Indices: 854429--854474 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
854419 CAATACGTTC
*
854429 GTGAATATATAAATGAGCATGTCT
1 GTGAACATATAAATGAGCATGTCT
854453 GTGAACATATAAATGAGCATGT
1 GTGAACATATAAATGAGCATGT
854475 TCAGAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (24 bp):
GTGAACATATAAATGAGCATGTCT
Found at i:854483 original size:24 final size:24
Alignment explanation
Indices: 854435--854488 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
854425 GTTCGTGAAT
* *
854435 ATATAAATGAGCATGTCTGTGAAC
1 ATATAAATGAGCATGTCAGTAAAC
854459 ATATAAATGAGCATGTTCAG-AAAC
1 ATATAAATGAGCATG-TCAGTAAAC
854483 A-ATAAA
1 ATATAAA
854489 AAAACATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 19 0.70
25 3 0.11
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (24 bp):
ATATAAATGAGCATGTCAGTAAAC
Found at i:855945 original size:59 final size:59
Alignment explanation
Indices: 855849--855967 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
855839 TAATAATTTA
* * *
855849 ACTGTCCAGACATTGAAGACACGTAATGCGTTTAACTGTTCATACTGAGAAATTCATCT
1 ACTGTCCAGACATTGAAGACACGTAATGCATTGAACTGTCCATACTGAGAAATTCATCT
*
855908 ACTGTCCAGACATTGATGACACGTAATGCATTGAACTGTCCATACTGAGAAATTCATCT
1 ACTGTCCAGACATTGAAGACACGTAATGCATTGAACTGTCCATACTGAGAAATTCATCT
855967 A
1 A
855968 TTTTTTAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (59 bp):
ACTGTCCAGACATTGAAGACACGTAATGCATTGAACTGTCCATACTGAGAAATTCATCT
Found at i:856913 original size:21 final size:21
Alignment explanation
Indices: 856882--856930 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
856872 GCCGACTGTT
856882 AGTGTATGTGAACAGCATGAAG
1 AGTGT-TGTGAACAGCATGAAG
*
856904 AGTGTTGTGAATAGCATGAAG
1 AGTGTTGTGAACAGCATGAAG
856925 AGTGTT
1 AGTGTT
856931 CATCAGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.33, T:0.29
Consensus pattern (21 bp):
AGTGTTGTGAACAGCATGAAG
Found at i:857082 original size:17 final size:17
Alignment explanation
Indices: 857062--857095 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
857052 AAGGGAAGTT
*
857062 GTTAACCAGCTGTTATA
1 GTTAACCAGCTGATATA
*
857079 GTTAATCAGCTGATATA
1 GTTAACCAGCTGATATA
857096 AATGAGCTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (17 bp):
GTTAACCAGCTGATATA
Found at i:858346 original size:21 final size:21
Alignment explanation
Indices: 858315--858363 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
858305 GGGGAATGTT
858315 AGTGTATGTGAACAACATGAAG
1 AGTGT-TGTGAACAACATGAAG
*
858337 AGTGTTGTGAATAACATGAAG
1 AGTGTTGTGAACAACATGAAG
858358 AGTGTT
1 AGTGTT
858364 CATCAGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.29
Consensus pattern (21 bp):
AGTGTTGTGAACAACATGAAG
Found at i:871699 original size:17 final size:17
Alignment explanation
Indices: 871677--871711 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
871667 TAATTTATCA
*
871677 TTATATTTATTTTTATT
1 TTATATTAATTTTTATT
871694 TTATATTAATTTTTATT
1 TTATATTAATTTTTATT
871711 T
1 T
871712 ATAATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATATTAATTTTTATT
Found at i:871802 original size:39 final size:38
Alignment explanation
Indices: 871733--871811 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 38
871723 ATTATTTCAG
*
871733 TCTTAATTTCTTAAATTTTATCGTCATAACATTTTAAAT
1 TCTTAATTTCTTAAATTTTATCGT-ATAACATTCTAAAT
*
871772 TCTTAATTTCTTAAATTGTTTTACGT-TAACATTCTAAAT
1 TCTTAATTTCTTAAATT-TTAT-CGTATAACATTCTAAAT
871811 T
1 T
871812 ATTTTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 30 0.83
40 3 0.08
41 3 0.08
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.52
Consensus pattern (38 bp):
TCTTAATTTCTTAAATTTTATCGTATAACATTCTAAAT
Found at i:871841 original size:11 final size:11
Alignment explanation
Indices: 871825--871850 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
871815 TTTTAAAATA
871825 TTTATTTTAAC
1 TTTATTTTAAC
871836 TTTATTTTAAC
1 TTTATTTTAAC
871847 TTTA
1 TTTA
871851 AAACATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATTTTAAC
Found at i:876431 original size:336 final size:336
Alignment explanation
Indices: 875818--876491 Score: 1339
Period size: 336 Copynumber: 2.0 Consensus size: 336
875808 ACAAAGTTAC
*
875818 GTATTTGCGGCATTGGAACCTTGCTTTGTTTTCTTCCATTTTGGTCACTTATTGTGTATGATTTG
1 GTATTTGCGGCATTGGAACCTTGCTTTGTTTTCTTCCATTTTGGTCACTTATTATGTATGATTTG
875883 TTTACTTAGATTTTCATTTAATGCAATTTGATATTGATTTTGTTTTTAACTTGTCTAATGCCTTA
66 TTTACTTAGATTTTCATTTAATGCAATTTGATATTGATTTTGTTTTTAACTTGTCTAATGCCTTA
875948 ATTTGAGTATTGACTTTAAAATCTTTTATTCTAGTCATATATTAAATTTATAGATTAAATCCCCT
131 ATTTGAGTATTGACTTTAAAATCTTTTATTCTAGTCATATATTAAATTTATAGATTAAATCCCCT
876013 AGATTTTAGAATTAATCAATTTGATCACCAAGATTAACTTTAATTCTTAATTTTTAATTAGGTCC
196 AGATTTTAGAATTAATCAATTTGATCACCAAGATTAACTTTAATTCTTAATTTTTAATTAGGTCC
876078 TAATTTTAATTTAATTTAATAAATTTATTTGTCCAATTGCGTTTTAACACCCCAACTTGGCTCCC
261 TAATTTTAATTTAATTTAATAAATTTATTTGTCCAATTGCGTTTTAACACCCCAACTTGGCTCCC
876143 AAGGGTAACTT
326 AAGGGTAACTT
876154 GTATTTGCGGCATTGGAACCTTGCTTTGTTTTCTTCCATTTTGGTCACTTATTATGTATGATTTG
1 GTATTTGCGGCATTGGAACCTTGCTTTGTTTTCTTCCATTTTGGTCACTTATTATGTATGATTTG
876219 TTTACTTAGATTTTCATTTAATGCAATTTGATATTGATTTTGTTTTTAACTTGTCTAATGCCTTA
66 TTTACTTAGATTTTCATTTAATGCAATTTGATATTGATTTTGTTTTTAACTTGTCTAATGCCTTA
876284 ATTTGAGTATTGACTTTAAAATCTTTTATTCTAGTCATATATTAAATTTATAGATTAAATCCCCT
131 ATTTGAGTATTGACTTTAAAATCTTTTATTCTAGTCATATATTAAATTTATAGATTAAATCCCCT
876349 AGATTTTAGAATTAATCAATTTGATCACCAAGATTAACTTTAATTCTTAATTTTTAATTAGGTCC
196 AGATTTTAGAATTAATCAATTTGATCACCAAGATTAACTTTAATTCTTAATTTTTAATTAGGTCC
876414 TAATTTTAATTTAATTTAATAAATTTATTTGTCCAATTGCGTTTTAACACCCCAACTTGGCTCCC
261 TAATTTTAATTTAATTTAATAAATTTATTTGTCCAATTGCGTTTTAACACCCCAACTTGGCTCCC
876479 AAGGGTAACTT
326 AAGGGTAACTT
876490 GT
1 GT
876492 GCATGCCTTA
Statistics
Matches: 337, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
336 337 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (336 bp):
GTATTTGCGGCATTGGAACCTTGCTTTGTTTTCTTCCATTTTGGTCACTTATTATGTATGATTTG
TTTACTTAGATTTTCATTTAATGCAATTTGATATTGATTTTGTTTTTAACTTGTCTAATGCCTTA
ATTTGAGTATTGACTTTAAAATCTTTTATTCTAGTCATATATTAAATTTATAGATTAAATCCCCT
AGATTTTAGAATTAATCAATTTGATCACCAAGATTAACTTTAATTCTTAATTTTTAATTAGGTCC
TAATTTTAATTTAATTTAATAAATTTATTTGTCCAATTGCGTTTTAACACCCCAACTTGGCTCCC
AAGGGTAACTT
Found at i:877553 original size:30 final size:31
Alignment explanation
Indices: 877519--877576 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
877509 TTACTTTAAA
* *
877519 AAAACGTTTAATATAG-GAACAAAACAAAAG
1 AAAACGTTAAATATAGACAACAAAACAAAAG
877549 AAAACGTTAAATATAGACAACAAAACAA
1 AAAACGTTAAATATAGACAACAAAACAA
877577 CAACAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (31 bp):
AAAACGTTAAATATAGACAACAAAACAAAAG
Found at i:878767 original size:21 final size:21
Alignment explanation
Indices: 878743--878789 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
878733 AATATGTAAA
*
878743 TCGCATTATGATTTTCCAAAT
1 TCGCATTACGATTTTCCAAAT
* *
878764 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTACGATTTTCCAAAT
878785 TCGCA
1 TCGCA
878790 ACGCGATAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTACGATTTTCCAAAT
Found at i:878858 original size:20 final size:20
Alignment explanation
Indices: 878678--878858 Score: 93
Period size: 20 Copynumber: 9.0 Consensus size: 20
878668 AAATGACCAA
* *
878678 CAAATTCACAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
878698 CAATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
*
878717 CCAATTTCGCAACGCGAATATGT
1 -CAAATTCGCAACGCGAAT-T-T
**** *
878740 -AAA-TCGCATTATGATTTT
1 CAAATTCGCAACGCGAATTT
*** *
878758 CCAAATTCGCGTTGCGATTTT
1 -CAAATTCGCAACGCGAATTT
*
878779 CCAAATTCGCAACGCG-ATAGT
1 -CAAATTCGCAACGCGAAT-TT
* **
878800 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAATTT
*
878820 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
878839 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
878859 TATTTCACAA
Statistics
Matches: 123, Mismatches: 28, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
18 1 0.01
19 21 0.17
20 67 0.54
21 32 0.26
22 1 0.01
23 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:879635 original size:12 final size:12
Alignment explanation
Indices: 879614--879647 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
879604 ACCACATTTC
*
879614 CAATACCAAACA
1 CAATATCAAACA
879626 CAATATCAAACA
1 CAATATCAAACA
*
879638 CAATCTCAAA
1 CAATATCAAA
879648 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:880019 original size:12 final size:12
Alignment explanation
Indices: 880001--880033 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
879991 ATATAACCCT
880001 GAAGAAGAAAAA
1 GAAGAAGAAAAA
*
880013 TAAGAAGAAAAA
1 GAAGAAGAAAAA
880025 GAAGAAGAA
1 GAAGAAGAA
880034 GAAGTCCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:882123 original size:18 final size:18
Alignment explanation
Indices: 882100--882135 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
882090 AAGCAAAAGG
*
882100 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
882118 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
882136 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:882506 original size:20 final size:20
Alignment explanation
Indices: 882481--882542 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
882471 TTCGCAACGC
882481 ATCGCGTAGCGAATTTGACT
1 ATCGCGTAGCGAATTTGACT
*
882501 ATCGCGTAGAGAATTTGACT
1 ATCGCGTAGCGAATTTGACT
*
882521 TTCGCGTAGCGAATTTGACT
1 ATCGCGTAGCGAATTTGACT
882541 AT
1 AT
882543 TGCAACGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
ATCGCGTAGCGAATTTGACT
Found at i:882674 original size:25 final size:25
Alignment explanation
Indices: 882636--882685 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
882626 AAATCAGTTA
*
882636 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
882661 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
882686 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:883080 original size:18 final size:18
Alignment explanation
Indices: 883059--883095 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
883049 GTAATTGGAG
883059 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
*
883077 TTTGAGTTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
883095 T
1 T
883096 ATAAATTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:883102 original size:24 final size:24
Alignment explanation
Indices: 883051--883103 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
883041 TTTCATATGT
* * * *
883051 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTAAATTTAAATATA
*
883075 AATTTGAGTTTAAATTTCAATATA
1 AATTTGAGTTTAAATTTAAATATA
883099 AATTT
1 AATTT
883104 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTAAATTTAAATATA
Found at i:883448 original size:39 final size:39
Alignment explanation
Indices: 883405--883491 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
883395 TCTGATGCTC
883405 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
883444 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
883483 ATCAAAATC
1 ATCAAAATC
883492 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:883853 original size:14 final size:14
Alignment explanation
Indices: 883819--883857 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
883809 ATAATTCTTA
883819 TTTACAAATCAAAT
1 TTTACAAATCAAAT
** *
883833 TAAACAAATCAACT
1 TTTACAAATCAAAT
883847 TTTACAAATCA
1 TTTACAAATCA
883858 TTTAATCAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (14 bp):
TTTACAAATCAAAT
Found at i:883891 original size:61 final size:63
Alignment explanation
Indices: 883770--883909 Score: 169
Period size: 61 Copynumber: 2.2 Consensus size: 63
883760 TTTTAGAAAT
*
883770 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACAAATCAAATT-
1 AACAAATCAACTTTTACAAATCAATT--ACAAGCAAAAAATAAATCTTATTTACAAATC-AATTG
883834 A
63 A
* * * ** *
883835 AACAAATCAACTTTTACAAATC-ATT-TAATCAAAAAATAAATCTTATTTCCTCATCAATTGT
1 AACAAATCAACTTTTACAAATCAATTACAAGCAAAAAATAAATCTTATTTACAAATCAATTGA
883896 AACAAATCAACTTT
1 AACAAATCAACTTT
883910 GAATGTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 4 0.06
61 38 0.57
64 3 0.04
65 22 0.33
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTACAAGCAAAAAATAAATCTTATTTACAAATCAATTGA
Found at i:885295 original size:21 final size:21
Alignment explanation
Indices: 885271--885360 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 21
885261 GGCGGGACCA
*
885271 CTTGAACGATGACAAGGGCCT
1 CTTGAACGATGAGAAGGGCCT
* * * *
885292 CTTGAACGGTGGGAGGGGCTT
1 CTTGAACGATGAGAAGGGCCT
* * *
885313 CTTCG-ATGATGATAGGGGCCT
1 CTT-GAACGATGAGAAGGGCCT
*
885334 CTTGAACGAT-AGGAGGTGCCT
1 CTTGAACGATGAGAAGG-GCCT
885355 CTTGAA
1 CTTGAA
885361 TAATGATAGG
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
20 4 0.08
21 47 0.90
22 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (21 bp):
CTTGAACGATGAGAAGGGCCT
Found at i:885367 original size:42 final size:42
Alignment explanation
Indices: 885286--885370 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
885276 ACGATGACAA
* * * *
885286 GGGCCTCTTGAACGGTGGGAGGGGCTTCTTCGATGATGATAG
1 GGGCCTCTTGAACGATAGGAGGGGCCTCTTCGATAATGATAG
*
885328 GGGCCTCTTGAACGATAGGAGGTGCCTCTT-GAATAATGATAG
1 GGGCCTCTTGAACGATAGGAGGGGCCTCTTCG-ATAATGATAG
885370 G
1 G
885371 TGCATCGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.26
Consensus pattern (42 bp):
GGGCCTCTTGAACGATAGGAGGGGCCTCTTCGATAATGATAG
Found at i:885371 original size:21 final size:21
Alignment explanation
Indices: 885321--885373 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
885311 TTCTTCGATG
* *
885321 ATGATAGGGGCCTCTTGAACG
1 ATGATAGGTGCCTCTTGAACA
* *
885342 AT-AGGAGGTGCCTCTTGAATA
1 ATGA-TAGGTGCCTCTTGAACA
885363 ATGATAGGTGC
1 ATGATAGGTGC
885374 ATCGGGCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (21 bp):
ATGATAGGTGCCTCTTGAACA
Found at i:887972 original size:20 final size:20
Alignment explanation
Indices: 887947--888033 Score: 99
Period size: 20 Copynumber: 4.3 Consensus size: 20
887937 ATAATATTGT
887947 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
*
887967 GAATTTGAC-TTCTGTGTTGC
1 GAATTTGACTTTC-GCGTTGC
* *
887987 G-ATTT-ACAAATTCGCATTGC
1 GAATTTGAC--TTTCGCGTTGC
888007 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
888027 GAATTTG
1 GAATTTG
888034 GAAAATCGCA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.04
19 7 0.12
20 38 0.68
21 7 0.12
22 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:888026 original size:40 final size:40
Alignment explanation
Indices: 887957--888069 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 40
887947 GAATTTGACT
* *
887957 TTCGCGTTGCGAATTTGAC-TTCTGTGTTGCGATTTACAAA
1 TTCGCATTGCGAATTTGACTTTC-GCGTTGCGATTTACAAA
**
887997 TTCGCATTGCGAATTTGACTTTCGCGTTGCGAATTTGGAAA
1 TTCGCATTGCGAATTTGACTTTCGCGTTGCG-ATTTACAAA
* *
888038 ATCGCAATGCG-ATTT-ACATATTCGCGTTGCGA
1 TTCGCATTGCGAATTTGAC-T-TTCGCGTTGCGA
888070 AATTGGAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.03
40 31 0.49
41 30 0.48
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (40 bp):
TTCGCATTGCGAATTTGACTTTCGCGTTGCGATTTACAAA
Found at i:888068 original size:20 final size:20
Alignment explanation
Indices: 887982--888069 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
887972 TGACTTCTGT
887982 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* *
888002 ATTGCGAATTTGAC--TTTCGC
1 GTTGCG-ATTT-ACAAATTCGC
** *
888022 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** *
888043 AATGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
888063 GTTGCGA
1 GTTGCGA
888070 AATTGGAAAT
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
20 35 0.71
21 12 0.24
22 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:888086 original size:20 final size:20
Alignment explanation
Indices: 888057--888110 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
888047 CGATTTACAT
888057 ATTCGCGTTGCGAAATTGGAA
1 ATTCGCGTTGCGAAATTGG-A
*
888078 ATT-GGGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
888097 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
888111 TTTGTTGGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 23 0.77
21 3 0.10
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:888340 original size:31 final size:31
Alignment explanation
Indices: 888302--888373 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
888292 TTAAGTGTCA
* * *
888302 AATTTGTTGCAAATCTATAACGTTAGTGACC
1 AATTTGTTACAAATCGATAACGTTAATGACC
888333 AATTTGTTACAAATCGATAACGTTAATGACC
1 AATTTGTTACAAATCGATAACGTTAATGACC
888364 AATTTGTTAC
1 AATTTGTTAC
888374 TTCTGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (31 bp):
AATTTGTTACAAATCGATAACGTTAATGACC
Found at i:888568 original size:12 final size:12
Alignment explanation
Indices: 888553--888577 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
888543 ATATATATAT
888553 ATATACACACAC
1 ATATACACACAC
888565 ATATACACACAC
1 ATATACACACAC
888577 A
1 A
888578 AACTTTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
ATATACACACAC
Found at i:891348 original size:37 final size:37
Alignment explanation
Indices: 891275--891349 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
891265 GTTAGAAAAC
** *
891275 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATAGAAAATCATAAA
* *
891312 ATTTATATAATTTTTTTTACAAAATAGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATAGAAAATCATAAA
891349 A
1 A
891350 ATCTTTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATAGAAAATCATAAA
Done.