Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000880.1 Hibiscus syriacus cultivar Beakdansim tig00001713_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: 1459553
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:819535 original size:3 final size:3
Alignment explanation
Indices: 819527--819615 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
819517 GACTAACCAA
819527 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
819575 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
819616 GATTTAGTCA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:820096 original size:60 final size:60
Alignment explanation
Indices: 819958--820097 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
819948 AACTCCACCA
* *
819958 ACTATATGATGTTACTTTATCGAATCCCCTAACTATTTAAAGTTATAAAATAGTCCCACG
1 ACTATATGATATTACTTTATCGAATCCCCTAACTATTAAAAGTTATAAAATAGTCCCACG
* * **
820018 ATTATATGGTATTACTTTATCGAATCCTTTAACTATTAAAAGTTATAAAATAGTCTCC-CG
1 ACTATATGATATTACTTTATCGAATCCCCTAACTATTAAAAGTTATAAAATAGTC-CCACG
* * *
820078 ACTATAAGATTTTGCTTTAT
1 ACTATATGATATTACTTTAT
820098 TGAGTCCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 66 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.39
Consensus pattern (60 bp):
ACTATATGATATTACTTTATCGAATCCCCTAACTATTAAAAGTTATAAAATAGTCCCACG
Found at i:820113 original size:60 final size:60
Alignment explanation
Indices: 819958--820114 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
819948 AACTCCACCA
* * * *
819958 ACTATATGATGTTACTTTATCGAATCCCCTAACTATTTAAAGTTATAAAATAGTCCCACG
1 ACTATAAGATATTACTTTATCGAATCCCTTAACTATTAAAAGTTATAAAATAGTCCCACG
* * * *
820018 ATTATATGGTATTACTTTATCGAATCCTTTAACTATTAAAAGTTATAAAATAGTCTCC-CG
1 ACTATAAGATATTACTTTATCGAATCCCTTAACTATTAAAAGTTATAAAATAGTC-CCACG
* * * * *
820078 ACTATAAGATTTTGCTTTATTGAGTCCCTTGACTATT
1 ACTATAAGATATTACTTTATCGAATCCCTTAACTATT
820115 CATATGTTCT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 79 0.98
61 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (60 bp):
ACTATAAGATATTACTTTATCGAATCCCTTAACTATTAAAAGTTATAAAATAGTCCCACG
Found at i:820684 original size:22 final size:22
Alignment explanation
Indices: 820653--820709 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
820643 TAATTTATTA
820653 AAAATAAAAATATAATAAAATTT-
1 AAAAT-AAAATATAAT-AAATTTG
*
820676 TAAATAAAAT-TAATAAATTTG
1 AAAATAAAATATAATAAATTTG
820697 AAGAATAAAATAT
1 AA-AATAAAATAT
820710 TTATTCTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 13 0.45
23 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (22 bp):
AAAATAAAATATAATAAATTTG
Found at i:827015 original size:27 final size:27
Alignment explanation
Indices: 826985--827049 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
826975 TCTATTTTAG
*
826985 TACTTAATTTTTTTCTCTTCAAAACCA
1 TACTTAATATTTTTCTCTTCAAAACCA
827012 TACTTAATATTTTTCTCTTCAAAACCA
1 TACTTAATATTTTTCTCTTCAAAACCA
827039 TACTTAATATT
1 TACTTAATATT
827050 CAGTTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (27 bp):
TACTTAATATTTTTCTCTTCAAAACCA
Found at i:828274 original size:21 final size:21
Alignment explanation
Indices: 828250--828323 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
828240 AATACGTGAA
828250 TCGCATTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCTAAAT
828271 TCGCATTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCTAAAT
* *
828292 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCTAAAT
*
828313 TCGCAATGCGA
1 TCGCATTGCGA
828324 ATATGTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCTAAAT
Found at i:828360 original size:21 final size:21
Alignment explanation
Indices: 828331--828422 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
828321 CGAATATGTT
828331 AATCGCAACGCGAATTTGGAA
1 AATCGCAACGCGAATTTGGAA
*
828352 AATCACAACGCGAATTTGGAA
1 AATCGCAACGCGAATTTGGAA
* *
828373 AATCGCAACGTGAATTT-GTA
1 AATCGCAACGCGAATTTGGAA
* *
828393 AATCGCAGCGCGAATTTAGAA
1 AATCGCAACGCGAATTTGGAA
828414 AATCGCAAC
1 AATCGCAAC
828423 AAAGAAGTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.27
21 45 0.73
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGAATTTGGAA
Found at i:828396 original size:41 final size:42
Alignment explanation
Indices: 828331--828422 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 42
828321 CGAATATGTT
*
828331 AATCGCAACGCGAATTTGGAAAATCACAACGCGAATTTGGAA
1 AATCGCAACGCGAATTTGGAAAATCACAACGCGAATTTAGAA
* * * *
828373 AATCGCAACGTGAATTT-GTAAATCGCAGCGCGAATTTAGAA
1 AATCGCAACGCGAATTTGGAAAATCACAACGCGAATTTAGAA
828414 AATCGCAAC
1 AATCGCAAC
828423 AAAGAAGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 29 0.64
42 16 0.36
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (42 bp):
AATCGCAACGCGAATTTGGAAAATCACAACGCGAATTTAGAA
Found at i:828441 original size:20 final size:20
Alignment explanation
Indices: 828416--828474 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
828406 ATTTAGAAAA
828416 TCGCAACAAAGAAGTCAAAT
1 TCGCAACAAAGAAGTCAAAT
828436 TCGCAACACAA-AAGTCAAAT
1 TCGCAACA-AAGAAGTCAAAT
*
828456 TCGCAACACAGAAGTCAAA
1 TCGCAACAAAGAAGTCAAA
828475 GCACGTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.49, C:0.24, G:0.14, T:0.14
Consensus pattern (20 bp):
TCGCAACAAAGAAGTCAAAT
Found at i:828628 original size:22 final size:22
Alignment explanation
Indices: 828603--828645 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
828593 CGACATCTGT
828603 CCCCATCTCCGACGAAATCCGA
1 CCCCATCTCCGACGAAATCCGA
828625 CCCCATCTCCGACGAAATCCG
1 CCCCATCTCCGACGAAATCCG
828646 TCTATCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.47, G:0.14, T:0.14
Consensus pattern (22 bp):
CCCCATCTCCGACGAAATCCGA
Found at i:829045 original size:20 final size:20
Alignment explanation
Indices: 829016--829124 Score: 133
Period size: 20 Copynumber: 5.8 Consensus size: 20
829006 TTAGTTTTGT
*
829016 GTTGCAATTTTCATTTTCGC
1 GTTGCGATTTTCATTTTCGC
*
829036 GTTGCGA-TTT--TGTT---
1 GTTGCGATTTTCATTTTCGC
829050 GTTGCGA-TTTCATTTTCGC
1 GTTGCGATTTTCATTTTCGC
* *
829069 GTTACGATTTTCATGTTCGC
1 GTTGCGATTTTCATTTTCGC
829089 GTTGCGATTTTCATTTTCGC
1 GTTGCGATTTTCATTTTCGC
829109 GTTGCGATTTTCATTT
1 GTTGCGATTTTCATTT
829125 CGCATTGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.13
16 3 0.04
17 3 0.04
19 9 0.12
20 51 0.67
ACGTcount: A:0.12, C:0.17, G:0.20, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGC
Found at i:829061 original size:33 final size:34
Alignment explanation
Indices: 829010--829119 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 34
829000 GCGAATTTAG
*
829010 TTTTG-TGTTGCAATTTTCATTTTCGCGTTGCGA
1 TTTTGTTGTTGCGATTTTCATTTTCGCGTTGCGA
*
829043 TTTTGTTGTTGCGA-TTTCATTTTCGCGTTACGA
1 TTTTGTTGTTGCGATTTTCATTTTCGCGTTGCGA
829076 TTTTCATGTTCGCGTTGCGATTTTCATTTTCGCGTTGCGA
1 -TTT--TGTT---GTTGCGATTTTCATTTTCGCGTTGCGA
829116 TTTT
1 TTTT
829120 CATTTCGCAT
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
33 23 0.35
34 10 0.15
36 4 0.06
37 1 0.02
39 10 0.15
40 18 0.27
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.52
Consensus pattern (34 bp):
TTTTGTTGTTGCGATTTTCATTTTCGCGTTGCGA
Found at i:831110 original size:4 final size:4
Alignment explanation
Indices: 831101--831130 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
831091 TTTTTCGACA
*
831101 TTAT TTAT TTAT TTAT TTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
831131 TCAGCGGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:831281 original size:21 final size:21
Alignment explanation
Indices: 831266--831379 Score: 131
Period size: 21 Copynumber: 5.4 Consensus size: 21
831256 TGCACCTGTA
*
831266 ATCGTTCAAGAGGCACCTC-C
1 ATCGTTCAAGAGGCCCCTCTC
831286 TATCGTTCAAGAGGCCCCTCTC
1 -ATCGTTCAAGAGGCCCCTCTC
* *
831308 ATCATTCAAGAGGCCCCTCCC
1 ATCGTTCAAGAGGCCCCTCTC
* *
831329 ACCGTTCAAGAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTCTC
* * *
831350 ATCATTCAAGAGGTCCCTCCC
1 ATCGTTCAAGAGGCCCCTCTC
*
831371 ACCGTTCAA
1 ATCGTTCAA
831380 TAGCCCGATT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 77 0.99
22 1 0.01
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCTC
Found at i:831335 original size:42 final size:42
Alignment explanation
Indices: 831270--831379 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
831260 CCTGTAATCG
* * *
831270 TTCAAGAGGCACCTCCTATCGTTCAAGAGGCCCCTCTCATCA
1 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTCTCATCA
*
831312 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCA
1 TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTCTCATCA
*
831354 TTCAAGAGGTCCCTCCCACCGTTCAA
1 TTCAAGAGGCCCCTCCCACCGTTCAA
831380 TAGCCCGATT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTCTCATCA
Found at i:832863 original size:64 final size:64
Alignment explanation
Indices: 832759--832895 Score: 247
Period size: 64 Copynumber: 2.1 Consensus size: 64
832749 GATTTTACAT
*
832759 TTGATTTGTAAAAGTTGATTTTTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
* *
832823 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTGTTTAA
1 TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
832887 TTGATTTGT
1 TTGATTTGT
832896 TGTTTATTCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.29, C:0.01, G:0.18, T:0.52
Consensus pattern (64 bp):
TTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAA
Found at i:832976 original size:20 final size:20
Alignment explanation
Indices: 832951--832991 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
832941 AAGGCACACT
832951 TTCGCAACGCGAAAATCAAA
1 TTCGCAACGCGAAAATCAAA
*
832971 TTCGCAACGCGAAAGTCAAA
1 TTCGCAACGCGAAAATCAAA
832991 T
1 T
832992 ACGCGTTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (20 bp):
TTCGCAACGCGAAAATCAAA
Found at i:833141 original size:20 final size:20
Alignment explanation
Indices: 833116--833159 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
833106 AACACTATAA
*
833116 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTAACTT
833136 TCGCGTTGCGAATTTAACTT
1 TCGCGTTGCGAATTTAACTT
833156 TCGC
1 TCGC
833160 ATCAATCGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAACTT
Found at i:833456 original size:11 final size:12
Alignment explanation
Indices: 833420--833458 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
833410 TTGTGATTGG
*
833420 GATTTTGATTTT
1 GATTTCGATTTT
833432 GATTTCGATTTT
1 GATTTCGATTTT
*
833444 GATTTC-CTTTT
1 GATTTCGATTTT
833455 GATT
1 GATT
833459 GGCACCATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (12 bp):
GATTTCGATTTT
Found at i:836544 original size:15 final size:16
Alignment explanation
Indices: 836508--836545 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
836498 AAATCATTGA
*
836508 AAAATTATATAGAAAT
1 AAAATTATATAGAAAC
*
836524 AAAATTATGTA-AAAC
1 AAAATTATATAGAAAC
836539 AAAATTA
1 AAAATTA
836546 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATTATATAGAAAC
Found at i:836725 original size:19 final size:18
Alignment explanation
Indices: 836682--836728 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
836672 CAAAAGATTT
836682 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
836700 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
836719 GTGTTGCGAA
1 GTGTTGCGAA
836729 TTCGAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:836793 original size:20 final size:20
Alignment explanation
Indices: 836768--836816 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
836758 CAAAAATTAA
836768 GTGTTGCGAATTTGACTTAT
1 GTGTTGCGAATTTGACTTAT
836788 GTGTTGCGAATTTGACTTAT
1 GTGTTGCGAATTTGACTTAT
*
836808 TTGTTGCGA
1 GTGTTGCGA
836817 TTTTATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.18, C:0.10, G:0.27, T:0.45
Consensus pattern (20 bp):
GTGTTGCGAATTTGACTTAT
Found at i:836881 original size:19 final size:19
Alignment explanation
Indices: 836827--836881 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
836817 TTTTATAAAT
836827 TCGCGTTGCGAATTTGGAA
1 TCGCGTTGCGAATTTGGAA
*
836846 ACTG-GTTGCGAAATTT-GAGA
1 TC-GCGTTGCG-AATTTGGA-A
836866 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
836882 TTGGTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.22, C:0.15, G:0.31, T:0.33
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGGAA
Found at i:837477 original size:20 final size:20
Alignment explanation
Indices: 837454--837529 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
837444 CGTGATTCTG
*
837454 ACTATTGCAACGCGATTTCC
1 ACTATCGCAACGCGATTTCC
**
837474 ACTATCGCAAATC-AGTTTCC
1 ACTATCGCAACGCGA-TTTCC
* **
837494 A-GATTCGCAACGCGATTTTG
1 ACTA-TCGCAACGCGATTTCC
837514 ACTATCGCAACGCGAT
1 ACTATCGCAACGCGAT
837530 AATACAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.05
20 39 0.91
21 2 0.05
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (20 bp):
ACTATCGCAACGCGATTTCC
Found at i:837543 original size:21 final size:21
Alignment explanation
Indices: 837517--837806 Score: 288
Period size: 21 Copynumber: 14.3 Consensus size: 21
837507 GATTTTGACT
837517 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
837538 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
*
837559 ATCGCAACTCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
*
837580 ATCGTAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* * *
837601 ATCGCAATGCGATTATGAC--T
1 ATCGCAACGCGATAAT-ACAAA
837621 AT---AACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* * *
837639 ATCGCAATGCGATTATGAC--T
1 ATCGCAACGCGATAAT-ACAAA
837659 AT---AACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* * *
837677 ATCGCAATGCGATTATGAC--T
1 ATCGCAACGCGATAAT-ACAAA
837697 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* *
837718 ATCGCAACGCGATTATGAC--T
1 ATCGCAACGCGATAAT-ACAAA
837738 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* *
837759 ATCGCAACGCGATTATGAC--T
1 ATCGCAACGCGATAAT-ACAAA
837779 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
837800 ATCGCAA
1 ATCGCAA
837807 TGCAATTTTC
Statistics
Matches: 218, Mismatches: 30, Indels: 42
0.75 0.10 0.14
Matches are distributed among these distances:
16 4 0.02
17 18 0.08
18 4 0.02
19 6 0.03
20 48 0.22
21 128 0.59
22 10 0.05
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:837718 original size:41 final size:41
Alignment explanation
Indices: 837538--837809 Score: 416
Period size: 41 Copynumber: 6.8 Consensus size: 41
837528 ATAATACAAA
* *
837538 ATCGCAACGCGATAATACAAAATCGCAACT-CGATAAT-ACAAA
1 ATCGCAACGCGATAATACAAAATCGCAA-TGCGATTATGAC--T
*
837580 ATCGTAACGCGATAATACAAAATCGCAATGCGATTATGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
837621 AT---AACGCGATAATACAAAATCGCAATGCGATTATGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
837659 AT---AACGCGATAATACAAAATCGCAATGCGATTATGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
*
837697 ATCGCAACGCGATAATACAAAATCGCAACGCGATTATGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
*
837738 ATCGCAACGCGATAATACAAAATCGCAACGCGATTATGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
837779 ATCGCAACGCGATAATACAAAATCGCAATGC
1 ATCGCAACGCGATAATACAAAATCGCAATGC
837810 AATTTTCCAA
Statistics
Matches: 220, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
38 76 0.35
41 109 0.50
42 33 0.15
43 2 0.01
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATACAAAATCGCAATGCGATTATGACT
Found at i:838254 original size:19 final size:20
Alignment explanation
Indices: 838229--838319 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 20
838219 CTTATTTTGG
838229 ATTTTTCACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
*
838249 -TTTTTCACTATTGCAACAAC
1 ATTTTTCACTATCGCAAC-AC
* *
838269 ACGTTTTTCAAACTCTTGCAACAC
1 A--TTTTTC--ACTATCGCAACAC
*
838293 A-TTTTAACTATCGCAACAC
1 ATTTTTCACTATCGCAACAC
838312 ATTTTTCA
1 ATTTTTCA
838320 AAATCGCGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 28 0.48
20 7 0.12
21 4 0.07
23 6 0.10
24 3 0.05
25 10 0.17
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTTTCACTATCGCAACAC
Found at i:841338 original size:38 final size:35
Alignment explanation
Indices: 841296--841490 Score: 201
Period size: 36 Copynumber: 5.3 Consensus size: 35
841286 TTTTAAAGTA
**
841296 TATAATATATAGTTTTTGGAAATTTATTTTTGAAAACG
1 TATAATATAT-GTTTTT-GAAA-ACATTTTTGAAAACG
** * **
841334 TATAATATATAGTTTTAAAAAAAAATATTTTGAAAATA
1 TATAATATAT-GTTTT-TGAAAACAT-TTTTGAAAACG
* *
841372 TATAATACATGTTTTTGAAAACATTTTTAAAAAACG
1 TATAATATATGTTTTTGAAAACATTTTT-GAAAACG
*
841408 TATAATATATGTTTTTGAAAACATTTTTTGAAAAAG
1 TATAATATATGTTTTTGAAAACA-TTTTTGAAAACG
* *
841444 TATAATCTATGTTTTTGAAAACATTTTTGTAAAACA
1 TATAATATATGTTTTTGAAAACATTTTTG-AAAACG
841480 TATAATATATG
1 TATAATATATG
841491 GCTTTTTTTT
Statistics
Matches: 132, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
35 10 0.08
36 73 0.55
37 12 0.09
38 37 0.28
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (35 bp):
TATAATATATGTTTTTGAAAACATTTTTGAAAACG
Found at i:841618 original size:18 final size:19
Alignment explanation
Indices: 841590--841625 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
841580 AGAATATATA
841590 ATATATAATTTTTGAAAAC
1 ATATATAATTTTTGAAAAC
841609 ATAT-TAATTTTTGAAAA
1 ATATATAATTTTTGAAAA
841626 TATAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (19 bp):
ATATATAATTTTTGAAAAC
Found at i:841699 original size:30 final size:30
Alignment explanation
Indices: 841661--841723 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
841651 TTTTGAAATA
841661 TATATATATATATATTAAGCTTATTATTATTT
1 TATATAT-TAT-TATTAAGCTTATTATTATTT
** *
841693 TATATATTATTATTAATTTTATTTTTATTT
1 TATATATTATTATTAAGCTTATTATTATTT
841723 T
1 T
841724 TAGGGTCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 18 0.64
31 3 0.11
32 7 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (30 bp):
TATATATTATTATTAAGCTTATTATTATTT
Found at i:863739 original size:23 final size:23
Alignment explanation
Indices: 863710--863768 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 23
863700 AAAAAAATAA
863710 TTTTGAAAACATATAATATATGT
1 TTTTGAAAACATATAATATATGT
*
863733 TTTTGAAAAACGTATAATATATGT
1 TTTTG-AAAACATATAATATATGT
863757 TTTTGAAAACAT
1 TTTTGAAAACAT
863769 TTTTTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTTGAAAACATATAATATATGT
Found at i:863742 original size:36 final size:37
Alignment explanation
Indices: 863644--863742 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
863634 TTTTTAAAGT
* ** *
863644 ATATAATATATAATTTTTGGAAATTTATTTTTGAAAAC
1 ATATAATATATAGTTTTT-GAAAAATAATTTTGAAAAC
**
863682 ATATAATATATAGTTTTCAAAAAAATAATTTTGAAAAC
1 ATATAATATATAGTTTT-TGAAAAATAATTTTGAAAAC
863720 ATATAATATAT-GTTTTTGAAAAA
1 ATATAATATATAGTTTTTGAAAAA
863743 CGTATAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
36 5 0.10
37 5 0.10
38 42 0.81
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAAATAATTTTGAAAAC
Found at i:863772 original size:36 final size:36
Alignment explanation
Indices: 863732--863804 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
863722 ATAATATATG
863732 TTTTTGAAAAACGTATAATATATGTTTTTGAAAACAT
1 TTTTTG-AAAACGTATAATATATGTTTTTGAAAACAT
863769 TTTTTGAAAACGTATAATATATGTTTTTGAAAACAT
1 TTTTTGAAAACGTATAATATATGTTTTTGAAAACAT
863805 ATAATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 30 0.83
37 6 0.17
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (36 bp):
TTTTTGAAAACGTATAATATATGTTTTTGAAAACAT
Found at i:863779 original size:60 final size:59
Alignment explanation
Indices: 863671--863850 Score: 220
Period size: 60 Copynumber: 3.0 Consensus size: 59
863661 TGGAAATTTA
* *
863671 TTTTTGAAAACATATAATATATAGTTTTCAAAAAAATAATTTTGAAAACATATAATATATG
1 TTTTTGAAAACATATAATATATAGTTTT-TAAAAAAT-TTTTTGAAAACATATAATATATG
* * *
863732 TTTTTGAAAAACGTATAATATAT-GTTTTTGAAAACATTTTTTGAAAACGTATAATATATG
1 TTTTTG-AAAACATATAATATATAGTTTTT-AAAAAATTTTTTGAAAACATATAATATATG
***
863792 TTTTTGAAAACATATAATATATAGTTTTTAAATTTTTTTTTTGAAAA-ATATACATATAT
1 TTTTTGAAAACATATAATATATAGTTTTTAAA-AAATTTTTTGAAAACATATA-ATATAT
863851 AATATAGTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
59 22 0.21
60 50 0.48
61 17 0.16
62 15 0.14
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (59 bp):
TTTTTGAAAACATATAATATATAGTTTTTAAAAAATTTTTTGAAAACATATAATATATG
Found at i:863799 original size:23 final size:24
Alignment explanation
Indices: 863769--863820 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
863759 TTGAAAACAT
*
863769 TTTTTGAAAACGTATAATATAT-G
1 TTTTTGAAAACATATAATATATAG
863792 TTTTTGAAAACATATAATATATAG
1 TTTTTGAAAACATATAATATATAG
863816 TTTTT
1 TTTTT
863821 AAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (24 bp):
TTTTTGAAAACATATAATATATAG
Found at i:863924 original size:17 final size:17
Alignment explanation
Indices: 863899--863931 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
863889 AATATATAAT
863899 ATATAATTTTTGAAAAC
1 ATATAATTTTTGAAAAC
*
863916 ATATTATTTTTGAAAA
1 ATATAATTTTTGAAAA
863932 TATAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
ATATAATTTTTGAAAAC
Found at i:872343 original size:20 final size:20
Alignment explanation
Indices: 872320--872379 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
872310 AAATATAGAA
872320 AATAAATATAATATAAAAAT
1 AATAAATATAATATAAAAAT
*
872340 AATAAATATAATAATAAATAT
1 AATAAATATAAT-ATAAAAAT
*
872361 AAT-AATAT-ATATAATAAT
1 AATAAATATAATATAAAAAT
872379 A
1 A
872380 TATATAAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 7 0.19
19 2 0.06
20 17 0.47
21 10 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAATATAATATAAAAAT
Found at i:872346 original size:24 final size:25
Alignment explanation
Indices: 872305--872386 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 25
872295 CTAAAACTAA
*
872305 ATAATAAATATAGAAAATAAATATAAT
1 ATAA-AAATATA-TAAATAAATATAAT
872332 ATAAAAATA-ATAAATATAATAATAAAT
1 ATAAAAATATATAAATA-AAT-AT-AAT
*
872359 ATAATAATATATATAAT-AATAT-AT
1 ATAAAAATATATA-AATAAATATAAT
872383 ATAA
1 ATAA
872387 GGGTAAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 11 0.23
25 4 0.08
26 9 0.19
27 18 0.38
28 3 0.06
29 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (25 bp):
ATAAAAATATATAAATAAATATAAT
Found at i:872354 original size:12 final size:12
Alignment explanation
Indices: 872304--872386 Score: 102
Period size: 12 Copynumber: 7.2 Consensus size: 12
872294 TCTAAAACTA
872304 AATAATAAATAT
1 AATAATAAATAT
*
872316 AGAAAATAAATAT
1 A-ATAATAAATAT
872329 AAT-AT-AA-A-
1 AATAATAAATAT
872337 AATAATAAATAT
1 AATAATAAATAT
872349 AATAATAAATAT
1 AATAATAAATAT
*
872361 AATAATATATAT
1 AATAATAAATAT
*
872373 AATAATATATAT
1 AATAATAAATAT
872385 AA
1 AA
872387 GGGTAAATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
8 3 0.05
9 3 0.05
10 4 0.06
11 3 0.05
12 39 0.62
13 11 0.17
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:873822 original size:35 final size:35
Alignment explanation
Indices: 873771--873850 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
873761 AACATATTCA
*
873771 TCAATTACATTATAAACCCCAAAATCCAAAATGCT
1 TCAATTACATTATAAACCCCAAAATCCAAAATACT
* * * *
873806 TCAATTACATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTATAAACCCCAAAATCCAAAATACT
*
873841 TTAATTACAT
1 TCAATTACAT
873851 GCCCAACCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.33
Consensus pattern (35 bp):
TCAATTACATTATAAACCCCAAAATCCAAAATACT
Found at i:873864 original size:35 final size:35
Alignment explanation
Indices: 873784--873866 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 35
873774 ATTACATTAT
* * * *
873784 AAACCCCAAAATCCAAAATGCTTCAATTACATTCT
1 AAACCCCAAATTCCAAAATACTTCAATTACATGCC
* * *
873819 AAACCTCAAATTCTAAAATACTTTAATTACATGCC
1 AAACCCCAAATTCCAAAATACTTCAATTACATGCC
*
873854 CAACCCCAAATTC
1 AAACCCCAAATTC
873867 ATAATCCATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (35 bp):
AAACCCCAAATTCCAAAATACTTCAATTACATGCC
Found at i:874293 original size:147 final size:143
Alignment explanation
Indices: 874026--874308 Score: 424
Period size: 147 Copynumber: 2.0 Consensus size: 143
874016 ACTCAATTCG
* * *
874026 GTTTATAAAATAGTTGACTTGAAATTTTTTTGATTTGAGTTTATAAAATTTAAATAAAGTTGAAT
1 GTTTATAAAATAGTTGACTCGAAATTTTTTTGATTTGAGTTTATAAAATTTAAATAAAATTAAAT
* * * *
874091 TGAATTTTCAAGTTTTAGTTTAAATTTAATTATAAATATTTATCATATTATAATATT-TTTTATT
66 TGAATTTTCAAGTTTCAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTTGATT
874155 CTAATTCAGTTCA
131 CTAATTCAGTTCA
*
874168 GTTTATAAAATAGTTGACTCGGAATTTTTTTGATTTGAGTTTATAAAATTTAAATCAAGTCAAAT
1 GTTTATAAAATAGTTGACTCGAAATTTTTTTGATTTGAGTTTATAAAATTTAAAT--A---AAAT
**
874233 TAAATTGAATTTTCGGGTTTCAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATT
61 TAAATTGAATTTTCAAGTTTCAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATT
874298 TGATTCTAATT
126 TGATTCTAATT
874309 TAAATAGTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
142 53 0.42
144 1 0.01
147 59 0.47
148 12 0.10
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (143 bp):
GTTTATAAAATAGTTGACTCGAAATTTTTTTGATTTGAGTTTATAAAATTTAAATAAAATTAAAT
TGAATTTTCAAGTTTCAGTTTAAATTTAATTATAAATATTTATAATACTATAATATTATTTGATT
CTAATTCAGTTCA
Found at i:874869 original size:35 final size:36
Alignment explanation
Indices: 874808--874886 Score: 126
Period size: 35 Copynumber: 2.2 Consensus size: 36
874798 GGGGTTGTTC
874808 ATGTAATTGAAGTATTTTTGGAATTT-GATGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGGA-GTTTAGA
874844 ATGTAATTGAAGTA-TTTTGGAATTTGGAGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATTTGGAGTTTAGA
*
874879 ATATAATT
1 ATGTAATT
874887 AATGAATGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
35 25 0.61
36 16 0.39
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.46
Consensus pattern (36 bp):
ATGTAATTGAAGTATTTTTGGAATTTGGAGTTTAGA
Found at i:881251 original size:33 final size:33
Alignment explanation
Indices: 881209--881273 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
881199 TATCAACTCA
*
881209 AGAAGATAAAATAAAATTTACTATAAAAAATAG
1 AGAAGATAAAATAAAATTAACTATAAAAAATAG
* *
881242 AGAAGATAAAATATAATTAACTATAGAAAATA
1 AGAAGATAAAATAAAATTAACTATAAAAAATA
881274 AGATAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (33 bp):
AGAAGATAAAATAAAATTAACTATAAAAAATAG
Found at i:881788 original size:21 final size:22
Alignment explanation
Indices: 881750--881790 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
881740 CTTAGATAGA
881750 AAATAATAACAAAGCACAAAAC
1 AAATAATAACAAAGCACAAAAC
* *
881772 AAATAA-AGCAAATCACAAA
1 AAATAATAACAAAGCACAAA
881791 GACGCTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.17, G:0.05, T:0.10
Consensus pattern (22 bp):
AAATAATAACAAAGCACAAAAC
Found at i:884968 original size:20 final size:20
Alignment explanation
Indices: 884945--884982 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
884935 AAACTAGTTG
* *
884945 AAATTTGATAAAATCGGTTT
1 AAATTTGACAAAACCGGTTT
884965 AAATTTGACAAAACCGGT
1 AAATTTGACAAAACCGGT
884983 AAAGAACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATTTGACAAAACCGGTTT
Found at i:885581 original size:2 final size:2
Alignment explanation
Indices: 885574--885632 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
885564 AAATGTATCG
885574 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
885616 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
885633 AAATATCGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:889905 original size:213 final size:214
Alignment explanation
Indices: 889450--889953 Score: 814
Period size: 213 Copynumber: 2.4 Consensus size: 214
889440 TGATACACAT
* *
889450 GTATAAAGTATCGATACTTAGCCAAATTAACAATGTAAACGGTAAAAGTCTACCGATGTAATGAA
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
* ** *
889515 AATAGGCGTGAATAACAAGTATTGCTACTTGTTATTTACGATTATTTTCAATTTACCAGAACACT
66 AATAGGCGTAAATAACAAGTATCACTACTTGTTATTTACGAATATTTTCAATTTACCAGAACACT
* *
889580 TTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGATTTCGAAATTTCAAGTAT
131 TTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGATTTCAAAATTCCAAGTAT
* *
889645 TGATACTTGTTATTTACAT
196 CGATACTTGTTATTTACAA
* * *
889664 GTATAAAGTATCGATACATAGCTAAATTAATAATGTAAACGGTCAAAGTCTACCGGTGTAATGAA
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
* *
889729 CATAGGCGTAAATAACAAGTATCACTACTTGTTATTTACGAATATTTTC-ATTATACC-GAACAT
66 AATAGGCGTAAATAACAAGTATCACTACTTGTTATTTACGAATATTTTCAATT-TACCAGAACAC
*
889792 TTTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTCCAAGTA
130 TTTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGATTTCAAAATTCCAAGTA
889857 TCGATACTTGTTATTTACAA
195 TCGATACTTGTTATTTACAA
* * *
889877 GTATAAAGTATCGATACTTAGGTAAATTAACAATGTAAACGATAAAAGTCTACCAGTGTAATGAA
1 GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
889942 AATAGGCGTAAA
66 AATAGGCGTAAA
889954 CAATGTAAAA
Statistics
Matches: 266, Mismatches: 23, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
213 158 0.59
214 108 0.41
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (214 bp):
GTATAAAGTATCGATACTTAGCTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTGTAATGAA
AATAGGCGTAAATAACAAGTATCACTACTTGTTATTTACGAATATTTTCAATTTACCAGAACACT
TTTATCCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGATTTCAAAATTCCAAGTAT
CGATACTTGTTATTTACAA
Found at i:891810 original size:200 final size:200
Alignment explanation
Indices: 891461--892472 Score: 1047
Period size: 200 Copynumber: 5.1 Consensus size: 200
891451 TGAAAATGTC
** * * ** * *
891461 CAAGTATCGATAC-TTGTTATATTCGTATTGATATTTTTATTTTAGTATGGTTCTCAAACAATAT
1 CAAGTATCGATACTTTGTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTT
* * * * * * * *
891525 GCCCGAAACAAAGTATCAATACCCATATATAAAGTATCGATACTTGTAATTTTGAAACCAATTAC
66 ACACGCAA-AAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCGAAACCTATTAC
* * *
891590 TTTAAAGTAATAGTTAAATTTACAATGTAAACGGTAAAAGTCTACCGGTATAATAATAATA-GCG
130 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAGGCG
891654 TAAACA
195 TAAACA
* * * * * *
891660 CATCGTATCGATACTTTGTTATATTGGTATCAATACTTTAATTCTAGTATGCATCTCAAACAATT
1 CA-AGTATCGATACTTTGTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATT
* * * **
891725 TGCAAGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAATTTATTAC
65 TACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCGAAACCTATTAC
* * * * * * * *
891790 TTTAAAGTAATAGGTAAATTTACAATATAAACAGTAAAAATATACCGATTTAATGAAAATGGGCA
130 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAGGCG
891855 TAAACA
195 TAAACA
* * * * * *
891861 TAAAGTATTGATACTTT-TTATATAGGTATCGATAATTTTGTTCAAGTATGCTTCTCAGACAATT
1 -CAAGTATCGATACTTTGTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATT
* * * *
891925 TACACGCAAAAAGTATCGATACACATGTACAAAGTATTGATACTTGGAATTTCGAAACCTATTAC
65 TACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCGAAACCTATTAC
* * * * *
891990 TATAAAGTAAAAGGTAAATTGACAATGTAAAGGGTAAAAGTTTACCGATATAATGATAATAGGCG
130 TTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAGGCG
* *
892055 TATATA
195 TAAACA
* * * * * *
892061 CTAAGTATCGATACTTT-ATATATAGTTATCGACACTCTTAGTCCAATATGCTTCTC-AACAATT
1 C-AAGTATCGATACTTTGTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATT
* * * * ** *
892124 TACACGCAAAATGTATCGATACACATGTATAACGTATCAATACGCGAAA-TTCTGAAACCGATTA
65 TACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTC-GAAACCTATTA
* * * * * * * *
892188 CTTTAAAGTAATTGGTAAGTTTACAATATAAATGGTAAAAGGCTTCCGATATATTGATAATACGC
129 CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAGGC
*
892253 GTAAATA
194 GTAAACA
* * * *
892260 TCAAGTATCAATA--ATGTCTATATAGGTATCGATACTTTTATTCCAATATGCTTCTCAAATAAT
1 -CAAGTATCGATACTTTGT-TATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAAT
* * *
892323 TTACATGCAAAATA-TATCGATACACATATATAAAATATCAATACTT-ATAATTTCGAAACCTAT
64 TTACACGCAAAA-AGTATCGATACACATATATAAAGTATCGATACTTGA-AATTTCGAAACCTAT
* * * * * *
892386 TACTTTAAAGTAATAAGTTAA-TTATAATGAAAACGATAAAAGTCTACCGGTATAATGATAATAG
127 TACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAG
892450 GCGTAAACA
192 GCGTAAACA
892459 TCAAGTATCGATAC
1 -CAAGTATCGATAC
892473 CTATGTATAA
Statistics
Matches: 667, Mismatches: 132, Indels: 27
0.81 0.16 0.03
Matches are distributed among these distances:
197 1 0.00
198 3 0.00
199 216 0.32
200 376 0.56
201 70 0.10
202 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (200 bp):
CAAGTATCGATACTTTGTTATATAGGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTT
ACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCGAAACCTATTACT
TTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACCGATATAATGATAATAGGCGT
AAACA
Found at i:892292 original size:399 final size:398
Alignment explanation
Indices: 891506--892472 Score: 1070
Period size: 399 Copynumber: 2.4 Consensus size: 398
891496 TTTATTTTAG
* * * * * * *
891506 TATGGTTCTCAAACAATATGCCCGAAACAAAGTATCAATACCCATATATAAAGTATCGATACTTG
1 TATGCTTCTCAAACAATTTACACGCAA-AAAGTATCGATACACATATATAAAGTATCGATACTTG
* * * *
891571 TAATTTTGAAACCAATTACTTTAAAGTAATAGTTAAATTTACAATGTAAACGGTAAAAGTCTACC
65 TAATTTCGAAACCTATTACTTTAAAGTAAAAGGTAAA-TTACAATGTAAACGGTAAAAGTCTACC
* * * *
891636 GGTATAATAATAATA-GCGTAAAC-ACATCGTATCGATACTTTGTTATATTGGTATCAATACTTT
129 GGTATAATGATAATAGGCGTAAACTA-A--GTATCGATACTTTGATATATAGGTATCAACACTTT
* * * * *
891699 AATTCTAGTATGCATCTCAAACAATTTGCAAGCAAAAAGTATCGATACACATATATAAAGTATCG
191 AAGTCCAATATGCATCTCAAACAATTTACAAGCAAAAAGTATCGATACACATATATAAAGTATCA
** ***
891764 ATACTTGAAATTTCAAAATTTATTACTTTAAAGTAATAGGTAAATTTACAATATAAACAGTAAAA
256 ATACGCGAAATTTCAAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATATAAACAGTAAAA
* * ** ** * * *
891829 ATATACCGATTTAATGAAAATGGGCATAAACATAAAGTATTGATACTTTTTATATAGGTATCGAT
321 AGATACCGATATAATGAAAATACGCATAAACATAAAGTATCAATAATGTCTATATAGGTATCGAT
*
891894 AATTTTGTT-CAA
386 AATTTTATTCCAA
* * * *
891906 GTATGCTTCTCAGACAATTTACACGCAAAAAGTATCGATACACATGTACAAAGTATTGATACTTG
1 -TATGCTTCTCAAACAATTTACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTG
* * * *
891971 GAATTTCGAAACCTATTACTATAAAGTAAAAGGTAAATTGACAATGTAAAGGGTAAAAGTTTACC
65 TAATTTCGAAACCTATTACTTTAAAGTAAAAGGTAAATT-ACAATGTAAACGGTAAAAGTCTACC
* * *
892036 GATATAATGATAATAGGCGTATATACTAAGTATCGATACTTT-ATATATAGTTATCGACACTCTT
129 GGTATAATGATAATAGGCGTA-A-ACTAAGTATCGATACTTTGATATATAGGTATCAACACT-TT
* * * * *
892100 -AGTCCAATATGCTTCTC-AACAATTTACACGCAAAATGTATCGATACACATGTATAACGTATCA
191 AAGTCCAATATGCATCTCAAACAATTTACAAGCAAAAAGTATCGATACACATATATAAAGTATCA
* * * **
892163 ATACGCGAAA-TTCTGAAACCGATTACTTTAAAGTAATTGGTAAGTTTACAATATAAATGGTAAA
256 ATACGCGAAATTTC-AAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATATAAACAGTAAA
* * * * * * * *
892227 AGGCTTCCGATATATTGATAATACGCGTAAATATCAAGTATCAATAATGTCTATATAGGTATCGA
320 AAGATACCGATATAATGAAAATACGCATAAACATAAAGTATCAATAATGTCTATATAGGTATCGA
*
892292 TACTTTTATTCCAA
385 TAATTTTATTCCAA
* * * * *
892306 TATGCTTCTCAAATAATTTACATGCAAAATA-TATCGATACACATATATAAAATATCAATACTTA
1 TATGCTTCTCAAACAATTTACACGCAAAA-AGTATCGATACACATATATAAAGTATCGATACTTG
* * * *
892370 TAATTTCGAAACCTATTACTTTAAAGTAATAA-GTTAATTATAATGAAAACGATAAAAGTCTACC
65 TAATTTCGAAACCTATTACTTTAAAGTAA-AAGGTAAATTACAATGTAAACGGTAAAAGTCTACC
892434 GGTATAATGATAATAGGCGTAAACATCAAGTATCGATAC
129 GGTATAATGATAATAGGCGTAAAC-T-AAGTATCGATAC
892473 CTATGTATAA
Statistics
Matches: 471, Mismatches: 83, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
396 2 0.00
397 2 0.00
398 55 0.12
399 234 0.50
400 132 0.28
401 41 0.09
402 1 0.00
403 3 0.01
404 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (398 bp):
TATGCTTCTCAAACAATTTACACGCAAAAAGTATCGATACACATATATAAAGTATCGATACTTGT
AATTTCGAAACCTATTACTTTAAAGTAAAAGGTAAATTACAATGTAAACGGTAAAAGTCTACCGG
TATAATGATAATAGGCGTAAACTAAGTATCGATACTTTGATATATAGGTATCAACACTTTAAGTC
CAATATGCATCTCAAACAATTTACAAGCAAAAAGTATCGATACACATATATAAAGTATCAATACG
CGAAATTTCAAAACCGATTACTTTAAAGTAATAGGTAAATTTACAATATAAACAGTAAAAAGATA
CCGATATAATGAAAATACGCATAAACATAAAGTATCAATAATGTCTATATAGGTATCGATAATTT
TATTCCAA
Found at i:893321 original size:64 final size:64
Alignment explanation
Indices: 893235--893397 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
893225 CGGTGCACCA
*
893235 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
893299 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
893364 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
893398 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:893369 original size:19 final size:19
Alignment explanation
Indices: 893345--893395 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
893335 GAAAATATTC
893345 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
893364 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
893383 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
893396 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:893437 original size:65 final size:65
Alignment explanation
Indices: 893239--893446 Score: 216
Period size: 65 Copynumber: 3.2 Consensus size: 65
893229 GCACCAAGTG
* ** *
893239 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGATGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
893302 G-
64 GA
* *
893303 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
893366 A
65 A
* * *
893367 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGATGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
893429 CTGA
62 CTGA
893433 TGCATCGATGCATG
1 TGCATCGATGCATG
893447 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 51 0.41
65 59 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:900871 original size:64 final size:64
Alignment explanation
Indices: 900818--900980 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
900808 CGGTGCACCA
* **
900818 AGTGTGCATCGATGCATGAAATGCATTTGATGTTTGAAAA-ATAGCCTAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAT-GCAGAGTGCATCGATGCATGG
** * *
900882 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATGCAGAGTGCATCGATGCATGG
* * *
900947 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
900981 CAATTAATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 30 0.36
65 52 0.62
66 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCAGAGTGCATCGATGCATGG
Found at i:900952 original size:19 final size:19
Alignment explanation
Indices: 900928--900978 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
900918 GAAAATATTC
900928 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
900947 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
900966 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
900979 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:901020 original size:65 final size:65
Alignment explanation
Indices: 900822--901029 Score: 198
Period size: 65 Copynumber: 3.2 Consensus size: 65
900812 GCACCAAGTG
* * * * **
900822 TGCATCGATGCATGAAATGCATTTGATGTTTGAAAA-ATAGCCTAGTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCAGAGTGCATCGATGCATGGAC-T
900885 G-
64 GA
* * *
900886 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
900949 A
65 A
* *
900950 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
901012 CTGA
62 CTGA
901016 TGCATCGGTGCATG
1 TGCATCGGTGCATG
901030 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 42 0.34
65 67 0.54
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:901560 original size:23 final size:23
Alignment explanation
Indices: 901528--901576 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
901518 CCCATCAGCT
901528 TTAAACAAGCGCTACTTATTATA
1 TTAAACAAGCGCTACTTATTATA
* *
901551 TTAAATAAGCGCTACTTGTTATA
1 TTAAACAAGCGCTACTTATTATA
901574 TTA
1 TTA
901577 TTGTGATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (23 bp):
TTAAACAAGCGCTACTTATTATA
Found at i:905969 original size:225 final size:225
Alignment explanation
Indices: 905451--906274 Score: 1210
Period size: 225 Copynumber: 3.7 Consensus size: 225
905441 TAACATAACC
* *
905451 GGTTAATTACTCGAAACATTATCAACCATAATAACATAAC-AGATAGAGCTTATGTAACGTAATA
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAG-TAGCGCTTATGTAACGTAATA
* * *
905515 GGTTGCGCCTTTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATATCAAAATAGGTTAATTACT
65 GGTAGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACT
* * * *
905580 TG-TCTTGTTACCAATATTATCAACATATTAGGTAGCGCCTAAAATGTAACCAAATTTTAAGCTG
130 TGAT-TTGTTATCAATATTATCAGCATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTG
* * *
905644 ATGGAGCCCTAGAAATTCGAAGATAACAAAATA
194 ATGGAG-CTTAGAAATCCGACGATAACAAAATA
* * **
905677 GGTTAATTACTGGAAACATTATTAACCATAATAACATAATAAGTAGCATTTATGTAACGTAATAG
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAACGTAATAG
** * * * *
905742 GTAGCATCTTTTTAAAGCTGACGAGGTCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTT
66 GTAGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTT
* *
905807 GATTTATTATCAATATTATCAGTATATTAGGTAGCGCCTAAAA-GTTACCAAAGTTTAAGCTGAT
131 GATTTGTTATCAATATTATCAGCATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
905871 GGAGCATTAGAAATCCGACGATAACAAAATA
196 GGAGC-TTAGAAATCCGACGATAACAAAATA
* * *
905902 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGAAATAG
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAACGTAATAG
* * *
905967 GTAGCGCCTGTTTAAAGCTAATGGGGCCTTAGAAATTCGAAGATAACAAAATATGTTAATTACTT
66 GTAGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTT
*
906032 GATTTGTTATCAATATTATCAGCATATTAGGTAGCGCCTAAAATTTTACCAAAGTTTAAGCTGAT
131 GATTTGTTATCAATATTATCAGCATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
* *
906097 TGAGTCTTAGAAATCCGACGATAACAAAAAA
196 GGAG-CTTAGAAATCCGACGATAACAAAATA
* * *
906128 GGTTAATTATTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTAT-TAATGTAATAA
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAACGTAATAG
* *
906192 GTAGTGTCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAAT--GTTAATTACTT
66 GTAGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTT
*
906255 GATTTGTTTTCAATATTATC
131 GATTTGTTATCAATATTATC
906275 TGTTGAAAAT
Statistics
Matches: 542, Mismatches: 51, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
223 30 0.06
224 1 0.00
225 257 0.47
226 250 0.46
227 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (225 bp):
GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATGTAACGTAATAG
GTAGCGCCTGTTTAAAGCTGATGGGGCCTTAGAAATTCGACGATAACAAAATAGGTTAATTACTT
GATTTGTTATCAATATTATCAGCATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
GGAGCTTAGAAATCCGACGATAACAAAATA
Found at i:906672 original size:20 final size:20
Alignment explanation
Indices: 906647--906686 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
906637 AAATCGAATG
*
906647 CATTTTATGCATCGGTGCAC
1 CATTTTATGCATCGATGCAC
906667 CATTTTATGCATCGATGCAC
1 CATTTTATGCATCGATGCAC
906687 ACTTGGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (20 bp):
CATTTTATGCATCGATGCAC
Found at i:910187 original size:15 final size:16
Alignment explanation
Indices: 910160--910195 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
910150 ATCAAAGGAA
910160 GAAACGAAAAGATGAG
1 GAAACGAAAAGATGAG
910176 GAAACG-AAAGATGAG
1 GAAACGAAAAGATGAG
910191 GAAAC
1 GAAAC
910196 TCAAGATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.56, C:0.08, G:0.31, T:0.06
Consensus pattern (16 bp):
GAAACGAAAAGATGAG
Found at i:912180 original size:44 final size:43
Alignment explanation
Indices: 912125--912245 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 43
912115 TTGTGCTTAA
*
912125 TGCATCGATACACTGAACAGTGCATCGATGCA-TCCCTTTGTATG
1 TGCATCGATACACTGAACAGTGCATCGATGCACT-CC-TTGAATG
* * *
912169 TGCATCGATACATCATGAAGA-TACACCGATGCACTCCTTGAATG
1 TGCATCGATACA-C-TGAACAGTGCATCGATGCACTCCTTGAATG
* * *
912213 TGCATCGATGCAC-AAAGCCGTGCATCGATGCAC
1 TGCATCGATACACTGAA-CAGTGCATCGATGCAC
912246 AAAGCCACGC
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.03
43 12 0.19
44 29 0.47
45 13 0.21
46 6 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
TGCATCGATACACTGAACAGTGCATCGATGCACTCCTTGAATG
Found at i:912237 original size:20 final size:20
Alignment explanation
Indices: 912212--912264 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
912202 CTCCTTGAAT
912212 GTGCATCGATGCACAAAGCC
1 GTGCATCGATGCACAAAGCC
912232 GTGCATCGATGCACAAAGCC
1 GTGCATCGATGCACAAAGCC
**
912252 ACGCATCGATGCA
1 GTGCATCGATGCA
912265 TCCGTCGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (20 bp):
GTGCATCGATGCACAAAGCC
Found at i:914962 original size:64 final size:66
Alignment explanation
Indices: 914831--914968 Score: 183
Period size: 64 Copynumber: 2.1 Consensus size: 66
914821 TTTCAAAGGA
* * * *
914831 ATGCACCGATGCACCAATCCATGCATCGATGCACTCAGGTTTTAATGAAAACATCGATTGCATTT
1 ATGCATCGATGCACCAATCCATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTT
914896 T
66 T
* * *
914897 ATGCATCGATGCA-CACA-CCATGCATCGATGCACTTAGG-CTTATTCAAAACATTGAATGCATT
1 ATGCATCGATGCACCA-ATCCATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATT
914959 TT
65 TT
914961 ATGCATCG
1 ATGCATCG
914969 TTGCGCACTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
64 29 0.45
65 22 0.34
66 13 0.20
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (66 bp):
ATGCATCGATGCACCAATCCATGCATCGATGCACTCAGGTCTTAATCAAAACATCGAATGCATTT
T
Found at i:918184 original size:131 final size:129
Alignment explanation
Indices: 917983--918350 Score: 434
Period size: 130 Copynumber: 2.8 Consensus size: 129
917973 TCGATAATGG
* * * * * *
917983 GAATAGTAATATCTTTTCATTTCAGTTGGAGTAATAAATGACTGCTTTAGGGCATGAGAGATCAT
1 GAATAGTGATATCTCTTCATTTCAATTGGAGTAATAAATGACTTCTTTAAGGTATGAGAGATCAT
* * * **
918048 TTATTCTCGATTGGAAATAATTCAATATCACCATTTTCTCTCAAATTAATATTGATTTTTAAGAT
66 TTATTCTCGATTGGAAATAATT-AATATCATCGTTTTCTCTCAAATCAATATT-AAATTTAAGAT
918113 A
129 A
* ** * *
918114 GAATAGTGATA-CATCTTGATTTTGATTGGAGCAATAAATGACTTCTTAAAGGTATGAGAGATCA
1 GAATAGTGATATC-TCTTCATTTCAATTGGAGTAATAAATGACTTCTTTAAGGTATGAGAGATCA
* * * * *
918178 TTTATTCTTGATTGGAAATCATTATATATTATCGTTTTCGCTCGAATCAATATTAAATTTAAGAT
65 TTTATTCTCGATTGGAAATAATTA-ATATCATCGTTTTCTCTCAAATCAATATTAAATTTAAGAT
*
918243 G
129 A
* * *
918244 GAATAGTGATATCTCTTCATTTCAATTGGAGTAATAAAT-AATTGTTTTAAGGTATGAGAGGTCA
1 GAATAGTGATATCTCTTCATTTCAATTGGAGTAATAAATGACTT-CTTTAAGGTATGAGAGATCA
*
918308 TTTATTATCGATTGGAAATAATTAAATATCATCGTTTTCTCTC
65 TTTATTCTCGATTGGAAATAATT-AATATCATCGTTTTCTCTC
918351 TTAAAATTAT
Statistics
Matches: 197, Mismatches: 35, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
129 3 0.02
130 97 0.49
131 97 0.49
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (129 bp):
GAATAGTGATATCTCTTCATTTCAATTGGAGTAATAAATGACTTCTTTAAGGTATGAGAGATCAT
TTATTCTCGATTGGAAATAATTAATATCATCGTTTTCTCTCAAATCAATATTAAATTTAAGATA
Found at i:924382 original size:23 final size:23
Alignment explanation
Indices: 924351--924404 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
924341 AATTATCCTG
* * *
924351 AAGTACCATATAGGTTTGCACCA
1 AAGTGCCATATAGGGTCGCACCA
*
924374 AAGTGCCATATAGGGTCGCACCG
1 AAGTGCCATATAGGGTCGCACCA
924397 AAGTGCCA
1 AAGTGCCA
924405 CATATTTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (23 bp):
AAGTGCCATATAGGGTCGCACCA
Found at i:931207 original size:21 final size:20
Alignment explanation
Indices: 931181--931274 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 20
931171 CATCTAAGTG
931181 CCACATAATTGACCCGAATGA
1 CCACATAATTGACCCGAA-GA
* *
931202 CCACATAGGTTTG-CACCGAAGTG
1 CCACATA--ATTGAC-CCGAAG-A
* *
931225 CCACATATTTGTCCCGAAGA
1 CCACATAATTGACCCGAAGA
931245 GCCACATAATT-ATCCCGGAAGA
1 -CCACATAATTGA-CCC-GAAGA
931267 CCACATAA
1 CCACATAA
931275 AACCCTTGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
21 37 0.62
22 8 0.13
23 15 0.25
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (20 bp):
CCACATAATTGACCCGAAGA
Found at i:931224 original size:44 final size:44
Alignment explanation
Indices: 931167--931252 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
931157 CAACTCATAA
* *
931167 TTTGCATCTAAGTGCCACATAATTGACCCGAATGA-CCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGACCCGAA-GAGCCACATAGG
* *
931211 TTTGCACCGAAGTGCCACATATTTGTCCCGAAGAGCCACATA
1 TTTGCACCGAAGTGCCACATAATTGACCCGAAGAGCCACATA
931253 ATTATCCCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGACCCGAAGAGCCACATAGG
Found at i:931228 original size:23 final size:21
Alignment explanation
Indices: 931176--931261 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
931166 ATTTGCATCT
* *
931176 AAGTGCCACATAATTGACCCG
1 AAGTGCCACATATTTGTCCCG
931197 AA-TGACCACATAGGTTTG-CACCG
1 AAGTG-CCACATA--TTTGTC-CCG
931220 AAGTGCCACATATTTGTCCCG
1 AAGTGCCACATATTTGTCCCG
* * *
931241 AAGAGCCACATAATTATCCCG
1 AAGTGCCACATATTTGTCCCG
931262 GAAGACCACA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.04
21 34 0.62
22 2 0.04
23 15 0.27
24 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (21 bp):
AAGTGCCACATATTTGTCCCG
Found at i:932690 original size:297 final size:303
Alignment explanation
Indices: 932122--932728 Score: 1037
Period size: 297 Copynumber: 2.0 Consensus size: 303
932112 CAAAATTATA
* *
932122 CCAAAATTTCAAGCATGTTCTTAATCGTTTTTAACACTCCTAACTCTTAAGTTAGATCATTGACA
1 CCAAAATTTCAAACATGTTCTTAATCATTTTTAACA--CC-AACTCTTAAGTTAGATCATTGACA
932187 AGTCAAATATCTCAATAGAACTTCAAAAACTACTCTATATCAAAATTTCATTTCTAAACCTATTT
63 AGTCAAATATCTCAATAGAACTTCAAAAACTACTCTATATCAAAATTTCATTTCTAAACCTATTT
* *
932252 TATCAATTCATCTCTAATTTTCTTATCTTGTTGTTTTAATCTATTACAAGCTTCCTTAAGATTTA
128 TATCAATTCATCTCTAA-TTTCTGATCTTGTTGTTTTAATCTATTACAAGCTTCCTTAACATTTA
*
932317 TAATACCCAAGCTACCAACACCAACTTAAATATTTAGAAACCAACCAAAAATCATGGGAACTTAC
192 TAACACCCAAGCTACCAACACCAACTTAAATATTTAGAAACCAACCAAAAATCATGGGAACTTAC
**
932382 CTTTGCAATGGCATTCAACGGTAAGGAGAAAGAAGAGAAAAATGTTT
257 CTTTGCAATGGCATTCAACGACAAGGAGAAAGAAGAGAAAAATGTTT
932429 CCAAAATTTCAAACATGTTCTTAATCATTTTT-A-A-C-ACTCTTAAGTTAGATCATTGACAAGT
1 CCAAAATTTCAAACATGTTCTTAATCATTTTTAACACCAACTCTTAAGTTAGATCATTGACAAGT
932490 CAAATATCTCAATAGAACTTCAAAAACTACTCTATATCAAAATTTCATTTCTAAACCTATTTTAT
66 CAAATATCTCAATAGAACTTCAAAAACTACTCTATATCAAAATTTCATTTCTAAACCTATTTTAT
* *
932555 CAATTCATCTCTAA-TT-TGATCTTGTTGTTTTAATCTATTATAAGCTTCCTTAACCTTTATAAC
131 CAATTCATCTCTAATTTCTGATCTTGTTGTTTTAATCTATTACAAGCTTCCTTAACATTTATAAC
932618 ACCCAAGCTACCAACACCAACTTAAATATTTAGAAACCAACCAAAAATCATGGGAACTTACCTTT
196 ACCCAAGCTACCAACACCAACTTAAATATTTAGAAACCAACCAAAAATCATGGGAACTTACCTTT
* *
932683 TCAATGGCATTCCACGACAAGGAGAAAGAAGAGAAAAATGTTT
261 GCAATGGCATTCAACGACAAGGAGAAAGAAGAGAAAAATGTTT
932726 CCA
1 CCA
932729 GACTTTTCCC
Statistics
Matches: 289, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
297 149 0.52
298 2 0.01
300 105 0.36
302 1 0.00
305 1 0.00
306 1 0.00
307 30 0.10
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (303 bp):
CCAAAATTTCAAACATGTTCTTAATCATTTTTAACACCAACTCTTAAGTTAGATCATTGACAAGT
CAAATATCTCAATAGAACTTCAAAAACTACTCTATATCAAAATTTCATTTCTAAACCTATTTTAT
CAATTCATCTCTAATTTCTGATCTTGTTGTTTTAATCTATTACAAGCTTCCTTAACATTTATAAC
ACCCAAGCTACCAACACCAACTTAAATATTTAGAAACCAACCAAAAATCATGGGAACTTACCTTT
GCAATGGCATTCAACGACAAGGAGAAAGAAGAGAAAAATGTTT
Found at i:937220 original size:7 final size:7
Alignment explanation
Indices: 937205--937333 Score: 114
Period size: 7 Copynumber: 19.0 Consensus size: 7
937195 GTACTTCGCC
*
937205 TGAAGAA
1 TGAAAAA
937212 TGAAAAA
1 TGAAAAA
937219 TGAAAAA
1 TGAAAAA
937226 -GAAAAAA
1 TG-AAAAA
937233 T-AAAGAA
1 TGAAA-AA
**
937240 AAAAGAAA
1 TGAA-AAA
937248 TG-AAAA
1 TGAAAAA
937254 -GAAAGAA
1 TGAAA-AA
*
937261 AG-AAAA
1 TGAAAAA
937267 TGAAAAAA
1 TG-AAAAA
937275 TG-AAAA
1 TGAAAAA
937281 -G-AAAA
1 TGAAAAA
937286 -GAAAAA
1 TGAAAAA
937292 TGAAAAA
1 TGAAAAA
937299 TGAAAAA
1 TGAAAAA
937306 TGAAAAA
1 TGAAAAA
937313 TGAAAAA
1 TGAAAAA
937320 TGAAAAA
1 TGAAAAA
937327 TGAAAAA
1 TGAAAAA
937334 AGAGAAAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
5 7 0.07
6 20 0.19
7 66 0.63
8 11 0.10
9 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (7 bp):
TGAAAAA
Found at i:937239 original size:11 final size:11
Alignment explanation
Indices: 937223--937303 Score: 53
Period size: 11 Copynumber: 7.3 Consensus size: 11
937213 GAAAAATGAA
*
937223 AAAGAAAAAAT
1 AAAGAAAAAAG
937234 AAAGAAAAAAG
1 AAAGAAAAAAG
937245 AAATG--AAAAG
1 AAA-GAAAAAAG
*
937255 AAAGAAAGAA-
1 AAAGAAAAAAG
*
937265 AATGAAAAAATG
1 AAAGAAAAAA-G
937277 AAAAGAAAAGAA-
1 -AAAGAAAA-AAG
*
937289 AAATGAAAAATG
1 AAA-GAAAAAAG
937301 AAA
1 AAA
937304 AATGAAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
9 1 0.02
10 16 0.29
11 20 0.36
12 9 0.16
13 7 0.13
14 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:937274 original size:21 final size:20
Alignment explanation
Indices: 937210--937363 Score: 112
Period size: 21 Copynumber: 7.8 Consensus size: 20
937200 TCGCCTGAAG
*
937210 AATGAAAAATG-AAAAAGAA
1 AATGAAAAAAGAAAAAAGAA
*
937229 AA--AATAAAGAAAAAAG-A
1 AATGAAAAAAGAAAAAAGAA
937246 AATG--AAAAGAAAGAAAGAA
1 AATGAAAAAAGAAA-AAAGAA
937265 AATGAAAAAATG--AAAAGAA
1 AATGAAAAAA-GAAAAAAGAA
* *
937284 AA-GAAAAATGAAAAATGAAA
1 AATGAAAAAAGAAAAAAG-AA
* *
937304 AATGAAAAATGAAAAATGAAA
1 AATGAAAAAAGAAAAAAG-AA
*
937325 AATGAAAAAAGAGAAAAATAA
1 AATGAAAAAAGA-AAAAAGAA
937346 AA-GAAGAAAAGAATAAAA
1 AATGAA-AAAAGAA-AAAA
937364 AAGAAAAAGA
Statistics
Matches: 112, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
17 16 0.14
18 16 0.14
19 19 0.17
20 9 0.08
21 47 0.42
22 5 0.04
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (20 bp):
AATGAAAAAAGAAAAAAGAA
Found at i:937274 original size:32 final size:32
Alignment explanation
Indices: 937238--937358 Score: 101
Period size: 32 Copynumber: 3.8 Consensus size: 32
937228 AAAAATAAAG
937238 AAAAAAGAAATGAAAAGAAAGAAAG-AAAATGA
1 AAAAAAGAAATGAAAAGAAA-AAAGAAAAATGA
* * *
937270 AAAAATGAAAAGAAAAGAAAAATGAAAAATG-
1 AAAAAAGAAATGAAAAGAAAAAAGAAAAATGA
* * *
937301 AAAAATG-AA--AAATGAAAAATGAAAAATGA
1 AAAAAAGAAATGAAAAGAAAAAAGAAAAATGA
937330 AAAAAGAGAAAAAT-AAAAGAAGAAAAGAA
1 AAAAA-AG--AAATGAAAAGAA-AAAAGAA
937359 TAAAAAAGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
28 18 0.24
29 5 0.07
30 3 0.04
31 10 0.14
32 24 0.32
33 2 0.03
34 6 0.08
35 6 0.08
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (32 bp):
AAAAAAGAAATGAAAAGAAAAAAGAAAAATGA
Found at i:937347 original size:14 final size:13
Alignment explanation
Indices: 937213--937371 Score: 83
Period size: 14 Copynumber: 11.5 Consensus size: 13
937203 CCTGAAGAAT
*
937213 GAAAAATGAAAAA
1 GAAAAATAAAAAA
937226 GAAAAAATAAAGAAA
1 G-AAAAATAAA-AAA
* *
937241 AAAGAAAT-GAAAA
1 GAA-AAATAAAAAA
*
937254 GAAAGAA-AGAAAAT
1 GAAA-AATA-AAAAA
*
937268 GAAAAA-ATGAAAA
1 GAAAAATA-AAAAA
* *
937281 G-AAAAGAAAAAT
1 GAAAAATAAAAAA
*
937293 GAAAAATGAAAAAT
1 GAAAAAT-AAAAAA
*
937307 GAAAAATGAAAAAT
1 GAAAAAT-AAAAAA
937321 GAAAAATGAAAAAAGA
1 GAAAAAT--AAAAA-A
937337 GAAAAATAAAAGAA
1 GAAAAATAAAA-AA
937351 GAAAAGAATAAAAAA
1 G-AAA-AATAAAAAA
937366 GAAAAA
1 GAAAAA
937372 GAGAATAAAC
Statistics
Matches: 118, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
12 9 0.08
13 22 0.19
14 54 0.46
15 19 0.16
16 14 0.12
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
GAAAAATAAAAAA
Found at i:937366 original size:80 final size:80
Alignment explanation
Indices: 937210--937371 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 80
937200 TCGCCTGAAG
* *
937210 AATGAAAAATGAAAAAGAAAAAATAAAGAAAAAAGAAATGAAAAGAAAGAAAGAAAATGAAAAAA
1 AATGAAAAATGAAAAAGAAAAAATAAAGAAAAAAGAAATGAAAAGAAAGAAAAAAAAAGAAAAAA
937275 TGAAAAGAAAAGAAA
66 TGAAAAGAAAAGAAA
**
937290 AATGAAAAATGAAAAATG-AAAAATGAAA-AATGAA-AAATGAAAA-AAGAGAAAAATAAAAGAA
1 AATGAAAAATGAAAAA-GAAAAAAT-AAAGAAAAAAGAAATGAAAAGAA-AGAAAAA-AAAAGAA
937351 GAAAA-GAATAA-AAAAGAAA
62 -AAAATGAA-AAGAAAAGAAA
937370 AA
1 AA
937372 GAGAATAAAC
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
78 2 0.03
79 15 0.21
80 45 0.62
81 10 0.14
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (80 bp):
AATGAAAAATGAAAAAGAAAAAATAAAGAAAAAAGAAATGAAAAGAAAGAAAAAAAAAGAAAAAA
TGAAAAGAAAAGAAA
Found at i:937372 original size:16 final size:16
Alignment explanation
Indices: 937329--937373 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
937319 ATGAAAAATG
*
937329 AAAAAAGAGAAA-AAT
1 AAAAAAGAAAAAGAAT
937344 AAAAGAAG-AAAAGAAT
1 AAAA-AAGAAAAAGAAT
937360 AAAAAAGAAAAAGA
1 AAAAAAGAAAAAGA
937374 GAATAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAT
Found at i:937385 original size:21 final size:20
Alignment explanation
Indices: 937330--937387 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
937320 TGAAAAATGA
*
937330 AAAAAGAGAA-AAATAAAAG
1 AAAAAGAGAATAAAAAAAAG
937349 AAGAAA-AGAAT--AAAAAAG
1 AA-AAAGAGAATAAAAAAAAG
937367 AAAAAGAGAATAAACAAAAAG
1 AAAAAGAGAATAAA-AAAAAG
937388 GGGGTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 3 0.09
18 13 0.41
19 6 0.19
20 4 0.12
21 6 0.19
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAAAGAGAATAAAAAAAAG
Found at i:938808 original size:134 final size:134
Alignment explanation
Indices: 938605--939179 Score: 608
Period size: 134 Copynumber: 4.3 Consensus size: 134
938595 GTGAATCGAA
* **
938605 CTCAATTCAATCTTCCCTGAGTAACAATGGAATGAATCAACGTCCCCATATCTGATTTTTTCTCA
1 CTCAATTCAATCTTCCCTGAATAACAATGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * *
938670 AGAAAAAACAGAATAAATACTTCTCTTTGAAGATTTGATATTCACTGAATAACAGTGGAACAAGT
66 AGAAAAAGCAGAATAAATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
938735 CTGC
131 CTAC
* *
938739 CTCAATTCAATCTTCCCT-AATAA-ATAGTGGAATGTAATTAATGTCCCCATATCTGA-TTTCCC
1 CTCAATTCAATCTTCCCTGAATAACA-A-TGGAATG-AATCAACGTCCCCATATCTGATTTTCCC
* *
938801 TCAAGAAAAAGCA-AA-ACATATCTCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAA
63 TCAAGAAAAAGCAGAATAAATA-C-CTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAA
*
938864 CAAGTCTGC
126 CAAGTCTAC
** * * * * * * * * *
938873 CTTGATTTAATCTTCCTTGACTAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCACTCG
1 CTCAATTCAATCTTCCCTGAATAACAATGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
* * * * * *
938938 AGAAGAAGCGGAACT-TATCCCCCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAATAAG
66 AGAAAAAGCAGAA-TAAATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
939002 TCTAC
130 TCTAC
* * * *
939007 CTCAATTCAAACTTCCCT-AGAGAACAATGAAATGAATCAACGTCCCCAAATCTGATTTTCCCTC
1 CTCAATTCAATCTTCCCTGA-ATAACAATGGAATGAATCAACGTCCCCATATCTGATTTTCCCTC
* * * * * * *
939071 AAGAAAAAGTAAAACAGATCCCTCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAAC-AT
65 AAGAAAAAGCAGAATAAATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
939135 TCTAC
130 TCTAC
* ** * *
939140 CTCGATTCAATCTTCTTTGAAGAACAGTGGAATGAATCAA
1 CTCAATTCAATCTTCCCTGAATAACAATGGAATGAATCAA
939180 TGTTTCTCGA
Statistics
Matches: 366, Mismatches: 61, Indels: 29
0.80 0.13 0.06
Matches are distributed among these distances:
132 5 0.01
133 65 0.18
134 267 0.73
135 26 0.07
136 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (134 bp):
CTCAATTCAATCTTCCCTGAATAACAATGGAATGAATCAACGTCCCCATATCTGATTTTCCCTCA
AGAAAAAGCAGAATAAATACCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
CTAC
Found at i:939098 original size:268 final size:267
Alignment explanation
Indices: 938692--939182 Score: 718
Period size: 268 Copynumber: 1.8 Consensus size: 267
938682 ATAAATACTT
* * *
938692 CTCTTTGAAGATTTGATATTCACTGAATAACAGTGGAACAAGTCTGCCTCAATTCAATCTTCCCT
1 CTCTTTCAAGATTTGATATTCACTGAATAACAGTGGAACAAGTCTACCTCAATTCAAACTTCCCT
* * * * * *
938757 AATAAATAGTGGAATGTAATTAATGTCCCCATATCTGATTTCCCTCAAGAAAAAGCAAAACATAT
66 AAGAAATAGTGAAATGTAATCAACGTCCCCAAATCTGATTTCCCTCAAGAAAAAGCAAAACAGAT
* * * *
938822 CTCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAACAAGTCTGCCTTGATTTAATCTT
131 CCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAAC-AGTCTACCTCGATTCAATCTT
**
938887 CCTTGACTAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCACTCGAGAAGAAGCGGAAC
195 CCTTGAAGAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCACTCGAGAAGAAGCGGAAC
938952 TTATCCCC
260 TTATCCCC
* * *
938960 CTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAATAAGTCTACCTCAATTCAAACTTCCCT
1 CTCTTTCAAGATTTGATATTCACTGAATAACAGTGGAACAAGTCTACCTCAATTCAAACTTCCCT
*
939025 AGAGAACA-A-TGAAATG-AATCAACGTCCCCAAATCTGATTTTCCCTCAAGAAAAAGTAAAACA
66 A-AGAA-ATAGTGAAATGTAATCAACGTCCCCAAATCTGA-TTTCCCTCAAGAAAAAGCAAAACA
* * *
939087 GATCCCTCTCTTTCAAGATTTGATATTCTCTGAGTAACAGTGGAACATTCTACCTCGATTCAATC
128 GATCCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAACAGTCTACCTCGATTCAATC
*
939152 TTCTTTGAAGAACAGTGGAATGAATCAATGT
193 TTCCTTGAAGAACAGTGGAATGAATCAATGT
939183 TTCTCGATCT
Statistics
Matches: 197, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
267 61 0.31
268 131 0.66
269 4 0.02
270 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (267 bp):
CTCTTTCAAGATTTGATATTCACTGAATAACAGTGGAACAAGTCTACCTCAATTCAAACTTCCCT
AAGAAATAGTGAAATGTAATCAACGTCCCCAAATCTGATTTCCCTCAAGAAAAAGCAAAACAGAT
CCCTCTCTTTCAAGATTTAATATTCCCTGAGTAACAGTGGAACAGTCTACCTCGATTCAATCTTC
CTTGAAGAACAGTGGAATGAATCAATGTCCCCAGATCTAATTTTCACTCGAGAAGAAGCGGAACT
TATCCCC
Found at i:939980 original size:3 final size:3
Alignment explanation
Indices: 939972--940013 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
939962 TGAAGAAAAG
939972 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
940014 AAGGAAAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:940573 original size:190 final size:196
Alignment explanation
Indices: 940181--940694 Score: 591
Period size: 190 Copynumber: 2.6 Consensus size: 196
940171 GTCCTAAATC
* * *
940181 TAGG-TTCAGAAATTTCAAGTATCGATACTTTGTACATGTGTATCGATACTTTTTGCGTGCAAAT
1 TAGGTTTC-GAAA-TTCAAGTATCGATACTTTATATATGTGTATCGATACTTTTTGCATGCAAAT
* *
940245 TGTTTGAAAAACATACTGGAATAAAAGTATCGATACCTATATAAAAAGTATTGATACTTTATGTT
64 TGTTTGAAAAACATACTGAAATAAAAG-ATC-ATA-CTATATAAAAAGTATCGATACTTTATGTT
* * * *
940310 TACGCCTATTATCATTAAACTGGTAGATTTTTACCATTTACATTGTAAATTTACTTATTACTTTA
126 TACGCCTATTATCATTAAACCGATAGACTTTTACCATTTACATTGTAAATTTACCTATTACTTTA
940375 AAGTAA
191 AAGTAA
*
940381 TAGGTTTCGAAATTCAAGTATCGATACTTTATATATGTGTATCGATACTTTTTGCATGCATATTG
1 TAGGTTTCGAAATTCAAGTATCGATACTTTATATATGTGTATCGATACTTTTTGCATGCAAATTG
* ** * *
940446 TTTGAGATGCATACTGAAATTAAAG-T-A-A-TATA-ACAAAGTATCGATACTATT-TGTTTACG
66 TTTGAAAAACATACTGAAATAAAAGATCATACTATATAAAAAGTATCGATACT-TTATGTTTACG
* * *
940505 -CTATTATCATTATACCGATAGACTTTTACCGTTTACATTGTAAATTTACCTATTACTTTATAGT
130 CCTATTATCATTAAACCGATAGACTTTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGT
940569 AA
195 AA
* *** *
940571 TAGGTTTCGAAATTCCAAGTATTGATACTTTATATATG-GTTATCGATACTTTTTTGTGGGTAAA
1 TAGGTTTCGAAATT-CAAGTATCGATACTTTATATATGTG-TATCGATAC-TTTTTGCATGCAAA
* * *
940635 TTATTT-AAGAACCATACT-AGAATAAAAGTATCAATACATATATAAAAAGTATCAATACTT
63 TTGTTTGAA-AAACATACTGA-AATAAAAG-ATC-ATAC-TATATAAAAAGTATCGATACTT
940695 GGACATTTTC
Statistics
Matches: 268, Mismatches: 31, Indels: 31
0.81 0.09 0.09
Matches are distributed among these distances:
190 74 0.28
191 55 0.21
192 34 0.13
194 2 0.01
195 1 0.00
196 1 0.00
197 2 0.01
199 74 0.28
200 22 0.08
201 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (196 bp):
TAGGTTTCGAAATTCAAGTATCGATACTTTATATATGTGTATCGATACTTTTTGCATGCAAATTG
TTTGAAAAACATACTGAAATAAAAGATCATACTATATAAAAAGTATCGATACTTTATGTTTACGC
CTATTATCATTAAACCGATAGACTTTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTA
A
Found at i:941612 original size:6 final size:6
Alignment explanation
Indices: 941601--941634 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
941591 AGTGGAGCTC
* *
941601 AAATTG AAATTG AAATTG AAATTC AAATTC AAAT
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAAT
941635 ATGCATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (6 bp):
AAATTG
Found at i:944173 original size:18 final size:18
Alignment explanation
Indices: 944145--944186 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
944135 TCTAAAGTTG
*
944145 TTTGTATCAAATGA-CTTGA
1 TTTG-ATCAAAAGACCTT-A
944164 TTTGATCAAAAGACCTTA
1 TTTGATCAAAAGACCTTA
944182 TTTGA
1 TTTGA
944187 GAAGAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
TTTGATCAAAAGACCTTA
Found at i:944204 original size:18 final size:19
Alignment explanation
Indices: 944183--944228 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
944173 AAGACCTTAT
*
944183 TTGAGAAGAAT-ACTTTGG
1 TTGAGAAGAATGACCTTGG
*
944201 TTGAGAA-TATGACCTTGG
1 TTGAGAAGAATGACCTTGG
944219 TTGAGAAGAA
1 TTGAGAAGAA
944229 CTGCGTCTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 2 0.09
18 20 0.87
19 1 0.04
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGAGAAGAATGACCTTGG
Found at i:945163 original size:20 final size:21
Alignment explanation
Indices: 945140--945195 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
945130 CAAATCGAAC
*
945140 CCGATTTTGTCAAATT-TCAA
1 CCGATTTTGTCAAATTACCAA
*
945160 CCGATTTTGAC-AATTACCAA
1 CCGATTTTGTCAAATTACCAA
*
945180 CCAATTTTGTCAAATT
1 CCGATTTTGTCAAATT
945196 CATTACCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (21 bp):
CCGATTTTGTCAAATTACCAA
Found at i:948488 original size:27 final size:26
Alignment explanation
Indices: 948430--948490 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
948420 GGTACTTTGG
* *
948430 GTCATTTTACACTTCAAGGGTATTTT
1 GTCATTTTACAATTCAAGGGTATTTA
* *
948456 GTTCATTTTATAATTTAAGGGTATTTCA
1 G-TCATTTTACAATTCAAGGGTATTT-A
948484 GTCATTT
1 GTCATTT
948491 CCTTTCGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (26 bp):
GTCATTTTACAATTCAAGGGTATTTA
Found at i:949427 original size:13 final size:13
Alignment explanation
Indices: 949409--949443 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
949399 CTAAACCAGG
949409 TTGACTCAGCGAA
1 TTGACTCAGCGAA
949422 TTGACTCAGCGAA
1 TTGACTCAGCGAA
949435 TTGACTCAG
1 TTGACTCAG
949444 TTAGTTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (13 bp):
TTGACTCAGCGAA
Found at i:958338 original size:18 final size:19
Alignment explanation
Indices: 958305--958342 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
958295 GTGCATTTCT
958305 TTATTTTCAAATTCATAAC
1 TTATTTTCAAATTCATAAC
*
958324 TTATTTT-AGATTCATAAC
1 TTATTTTCAAATTCATAAC
958342 T
1 T
958343 CCTTTTTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (19 bp):
TTATTTTCAAATTCATAAC
Found at i:958348 original size:18 final size:19
Alignment explanation
Indices: 958315--958366 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
958305 TTATTTTCAA
*
958315 ATTCATAACTTA-TTTTAG
1 ATTCATAACTCATTTTTAG
* *
958333 ATTCATAACTCCTTTTTGG
1 ATTCATAACTCATTTTTAG
*
958352 ATTCATAGCTCATTT
1 ATTCATAACTCATTT
958367 CCAGATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 10 0.36
19 18 0.64
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (19 bp):
ATTCATAACTCATTTTTAG
Found at i:961104 original size:21 final size:21
Alignment explanation
Indices: 961078--961121 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
961068 ATTCTGGGCT
* *
961078 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
961099 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
961120 AG
1 AG
961122 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:961191 original size:23 final size:22
Alignment explanation
Indices: 961147--961191 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
961137 GAATGTCATG
*
961147 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
961169 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
961192 AAAGTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:962416 original size:18 final size:18
Alignment explanation
Indices: 962393--962428 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
962383 AGGAATGATA
962393 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
962411 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
962429 ATATGTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:962440 original size:121 final size:121
Alignment explanation
Indices: 962290--962531 Score: 430
Period size: 121 Copynumber: 2.0 Consensus size: 121
962280 CGAGGGTCTA
* *
962290 TGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGTGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
962355 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
*
962411 TGTGGTCCTTCGGGACATATATGTGTTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
962476 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
962532 ATATGTATTC
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (121 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTCGGGACAT
Found at i:962634 original size:103 final size:103
Alignment explanation
Indices: 962411--962626 Score: 387
Period size: 103 Copynumber: 2.1 Consensus size: 103
962401 TTCGGGACAT
*
962411 TGTGGTCCTTCGGGACATATATGTGTTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
* *
962476 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
*
962514 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
*
962579 GATCCCTAGTATATGTATATGATTCTTAAGGAATGATA
66 GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
962617 TGTGGTCCTT
1 TGTGGTCCTT
962627 ATGGACATTA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (103 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGCATATGTATATGATTCTTAAGGAATGATA
Found at i:962673 original size:23 final size:23
Alignment explanation
Indices: 962643--962702 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
962633 ATTATTATAT
*
962643 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
962666 GGCACTACGGTGCAATTCTATGT
1 GGCACTACGGTGCAATTCTACGC
*
962689 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
962703 TTTATATGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:962710 original size:23 final size:23
Alignment explanation
Indices: 962633--962710 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
962623 CCTTATGGAC
* *
962633 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
962657 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
962680 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
962703 TTTATATG
1 ATTATATG
962711 AGATGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:968971 original size:25 final size:25
Alignment explanation
Indices: 968942--968999 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
968932 TACGTATAAT
* *
968942 TTAATAAAGTAATAATGATTAATTA-
1 TTAATAAAATAATAAT-AATAATTAG
*
968967 TTAATAAAATAATAATAATGATTAG
1 TTAATAAAATAATAATAATAATTAG
968992 TTAATAAA
1 TTAATAAA
969000 TTATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (25 bp):
TTAATAAAATAATAATAATAATTAG
Found at i:969975 original size:12 final size:12
Alignment explanation
Indices: 969958--970008 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
969948 TTCAAAGATG
969958 TTTTATATTTAA
1 TTTTATATTTAA
969970 TTTTATA-TTATA
1 TTTTATATTTA-A
*
969982 TTTAAT-TTTAA
1 TTTTATATTTAA
969993 TTTTA-ATATTAA
1 TTTTATAT-TTAA
970005 TTTT
1 TTTT
970009 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:970067 original size:12 final size:12
Alignment explanation
Indices: 969966--970135 Score: 93
Period size: 12 Copynumber: 13.7 Consensus size: 12
969956 TGTTTTATAT
969966 TTAATTTT-ATA
1 TTAATTTTAATA
*
969977 TT-ATATTTAATT
1 TTAAT-TTTAATA
969989 TTAATTTTAATA
1 TTAATTTTAATA
970001 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
** *
970014 -TAAAATAAATA
1 TTAATTTTAATA
970025 TTAATTTTTTAATA
1 TTAA--TTTTAATA
*
970039 TTATATTATAGATA
1 TTA-ATTTTA-ATA
970053 TTAATTTTAATA
1 TTAATTTTAATA
970065 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
970078 -TAAATTAAATA
1 TTAATTTTAATA
970089 TTAATTTTTTAATA
1 TTAA--TTTTAATA
*
970103 TTATATTATAGA-A
1 TTA-ATTTTA-ATA
*
970116 TTTATTTTAATA
1 TTAATTTTAATA
970128 TTAATTTT
1 TTAATTTT
970136 TTTAAAAAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
10 9 0.07
11 8 0.07
12 46 0.38
13 20 0.17
14 36 0.30
15 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:970068 original size:64 final size:63
Alignment explanation
Indices: 969970--970183 Score: 316
Period size: 64 Copynumber: 3.5 Consensus size: 63
969960 TTATATTTAA
* *
969970 TTTT-ATATTATATT-TAATTTTAATTTTAATATTAATTTTTTAAATAAAATAAATATTAATT
1 TTTTAATATTATATTATAATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
970031 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATA-ATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
*
970095 TTTTAATATTATATTATAGA-ATTTATTTTAATATTAATTTTTTTAAA-AAATTAAATATTAATT
1 TTTTAATATTATATTATA-ATATTAATTTTAATATTAA-TTTTTTAAATAAATTAAATATTAATT
*
970158 TTTTAA-A-TAAATTA-AATATTAATTTT
1 TTTTAATATTATATTATAATATTAATTTT
970184 TTAAATAAAT
Statistics
Matches: 143, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
59 1 0.01
60 9 0.06
61 10 0.07
62 11 0.08
63 40 0.28
64 72 0.50
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (63 bp):
TTTTAATATTATATTATAATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
Found at i:970071 original size:40 final size:37
Alignment explanation
Indices: 970021--970105 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 37
970011 AAATAAAATA
*
970021 AATATTAATTTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAATTTTT
970061 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAA-TTTTT
970099 AATATTA
1 AATATTA
970106 TATTATAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 7 0.17
37 1 0.02
38 17 0.40
39 1 0.02
40 16 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
Found at i:970178 original size:48 final size:50
Alignment explanation
Indices: 970124--970234 Score: 201
Period size: 49 Copynumber: 2.3 Consensus size: 50
970114 AATTTATTTT
970124 AATATTAATTTTTTTAAA-AAATTAAATATTAA-TTTTTTAAATAAATTA
1 AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTTAAATAAATTA
970172 AATATTAA-TTTTTTAAATAAATTAAATATTAATTTTTTTAAATAAATTA
1 AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTTAAATAAATTA
970221 AATATTAATTTTTT
1 AATATTAATTTTTT
970235 AATATTATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
47 9 0.15
48 22 0.37
49 24 0.40
50 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (50 bp):
AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTTAAATAAATTA
Found at i:970184 original size:25 final size:25
Alignment explanation
Indices: 970124--970234 Score: 201
Period size: 24 Copynumber: 4.6 Consensus size: 25
970114 AATTTATTTT
970124 AATATTAATTTTTTTAAA-AAATTA
1 AATATTAATTTTTTTAAATAAATTA
970148 AATATTAA-TTTTTTAAATAAATTA
1 AATATTAATTTTTTTAAATAAATTA
970172 AATATTAA-TTTTTTAAATAAATTA
1 AATATTAATTTTTTTAAATAAATTA
970196 AATATTAATTTTTTTAAATAAATTA
1 AATATTAATTTTTTTAAATAAATTA
970221 AATATTAATTTTTT
1 AATATTAATTTTTT
970235 AATATTATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
23 9 0.11
24 46 0.54
25 30 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AATATTAATTTTTTTAAATAAATTA
Found at i:970211 original size:87 final size:89
Alignment explanation
Indices: 969997--970212 Score: 273
Period size: 87 Copynumber: 2.5 Consensus size: 89
969987 TTTTAATTTT
* ** * *
969997 AATATTAATTTTTTAAATAAAATAAATATTAA-TTTTTTAATATTATATTATAGATATTAATTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTTAATATTATATTATAGATAAAAAATTA
970061 AATATTAATTTTTTAAATAAATTA
66 AATATTAATTTTTTAAATAAATTA
* * ***
970085 AATATTAATTTTTT-AAT--ATTATATTATAGAATTTATTTTAATATTA-ATT-TTTTTAAAAAA
1 AATATTAATTTTTTAAATAAATTA-AATAT-TAATTT-TTTTAATATTATATTATAGATAAAAAA
970145 TTAAATATTAATTTTTTAAATAAATTA
63 TTAAATATTAATTTTTTAAATAAATTA
970172 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTTAA
1 AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTTAA
970213 ATAAATTAAA
Statistics
Matches: 109, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
85 3 0.03
86 4 0.04
87 56 0.51
88 27 0.25
89 15 0.14
90 4 0.04
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (89 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTTTTAATATTATATTATAGATAAAAAATTA
AATATTAATTTTTTAAATAAATTA
Found at i:970317 original size:20 final size:19
Alignment explanation
Indices: 970257--970318 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
970247 TAGATATTTA
*
970257 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
970276 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
970294 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
970314 ATTTT
1 ATTTT
970319 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:974938 original size:52 final size:52
Alignment explanation
Indices: 974877--974980 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
974867 AAGTTTTCTC
974877 CCTTTCATTCAAATAGGCAGTTTGATGATTTATTATGTACAACAAGCAAAAA
1 CCTTTCATTCAAATAGGCAGTTTGATGATTTATTATGTACAACAAGCAAAAA
*
974929 CCTTTCATTCAAGTAGGCAGTTTGATGATTTATTATGTACAACAAGCAAAAA
1 CCTTTCATTCAAATAGGCAGTTTGATGATTTATTATGTACAACAAGCAAAAA
974981 GAAAATATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (52 bp):
CCTTTCATTCAAATAGGCAGTTTGATGATTTATTATGTACAACAAGCAAAAA
Found at i:981908 original size:3 final size:3
Alignment explanation
Indices: 981900--981958 Score: 109
Period size: 3 Copynumber: 19.3 Consensus size: 3
981890 TAAACAAAAT
981900 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
981946 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
981959 TAAGACCGGA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:983339 original size:13 final size:13
Alignment explanation
Indices: 983306--983493 Score: 78
Period size: 13 Copynumber: 13.3 Consensus size: 13
983296 ATAATATATA
*
983306 TATATGATATAAAA
1 TATAT-ATATAAAC
983320 T-TATATATAAAC
1 TATATATATAAAC
*
983332 TATATATATAAAT
1 TATATATATAAAC
* *
983345 TATATTATGTGAAC
1 TATA-TATATAAAC
*
983359 TATATATA-AAATG
1 TATATATATAAA-C
983372 TATATAAATTATAAAC
1 TATAT--A-TATAAAC
983388 TATATTTATATTATAAC
1 TATA--TATA-TA-AAC
983405 TATATAATTATTATAAGC
1 TATAT-A-TA-TA-AA-C
983423 TATATATA-AATTA-
1 TATATATATAA--AC
* * * * *
983436 TGTTTATGTGAAT
1 TATATATATAAAC
983449 TATATATATAAAC
1 TATATATATAAAC
*
983462 TATGTATATAAAC
1 TATATATATAAAC
983475 TATATATGTATAAAC
1 TATATA--TATAAAC
983490 TATA
1 TATA
983494 AAAAGTATAT
Statistics
Matches: 134, Mismatches: 20, Indels: 39
0.69 0.10 0.20
Matches are distributed among these distances:
12 11 0.08
13 56 0.42
14 13 0.10
15 16 0.12
16 12 0.09
17 19 0.14
18 7 0.05
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:983348 original size:11 final size:11
Alignment explanation
Indices: 983300--983436 Score: 68
Period size: 11 Copynumber: 12.3 Consensus size: 11
983290 AAAAATATAA
*
983300 TATATATATAT
1 TATATATAAAT
*
983311 GATATA-AAAT
1 TATATATAAAT
983321 TATATATAAACT
1 TATATATAAA-T
983333 ATATATATAAAT
1 -TATATATAAAT
* *
983345 TATATTATGTGAAC
1 TATA-TA--TAAAT
*
983359 TATATATAAAA
1 TATATATAAAT
*
983370 TGTATATAAAT
1 TATATATAAAT
* *
983381 TATAAACTATAT
1 TATATA-TAAAT
*
983393 T-TATAT-TAT
1 TATATATAAAT
*
983402 AACTATAT-AAT
1 TA-TATATAAAT
**
983413 TAT-TATAAGC
1 TATATATAAAT
983423 TATATATAAAT
1 TATATATAAAT
983434 TAT
1 TAT
983437 GTTTATGTGA
Statistics
Matches: 95, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
9 6 0.06
10 14 0.15
11 47 0.49
12 9 0.09
13 12 0.13
14 7 0.07
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (11 bp):
TATATATAAAT
Found at i:983400 original size:18 final size:19
Alignment explanation
Indices: 983379--983427 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
983369 ATGTATATAA
*
983379 ATTATAAACTATATTTA-T
1 ATTATAAACTATATTAATT
983397 ATTAT-AACTATA-TAATT
1 ATTATAAACTATATTAATT
*
983414 ATTATAAGCTATAT
1 ATTATAAACTATAT
983428 ATAAATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 11 0.42
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTATAAACTATATTAATT
Found at i:983418 original size:35 final size:33
Alignment explanation
Indices: 983372--983436 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
983362 ATATAAAATG
* *
983372 TATATAAATTATAAACTATATTTATATTATAAC
1 TATATAAATTATAAACTATATATAAATTATAAC
*
983405 TATATAATTATTATAAGCTATATATAAATTAT
1 TATATAA--ATTATAAACTATATATAAATTAT
983437 GTTTATGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 7 0.26
35 20 0.74
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (33 bp):
TATATAAATTATAAACTATATATAAATTATAAC
Found at i:983435 original size:18 final size:17
Alignment explanation
Indices: 983372--983436 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
983362 ATATAAAATG
983372 TATATAAATTATAAACTA
1 TATATAAATTAT-AACTA
* *
983390 TATTTATATTATAACTA
1 TATATAAATTATAACTA
*
983407 TATA-ATTATTATAAGCTA
1 TATATA-AATTATAA-CTA
983425 TATATAAATTAT
1 TATATAAATTAT
983437 GTTTATGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 16 0.40
18 22 0.55
19 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (17 bp):
TATATAAATTATAACTA
Found at i:983506 original size:18 final size:18
Alignment explanation
Indices: 983483--983522 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
983473 ACTATATATG
983483 TATAAACTATAAAAAGTA
1 TATAAACTATAAAAAGTA
*
983501 TATAAACTATAAAAATTA
1 TATAAACTATAAAAAGTA
983519 TATA
1 TATA
983523 GTTTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
TATAAACTATAAAAAGTA
Found at i:983776 original size:20 final size:19
Alignment explanation
Indices: 983742--983782 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
983732 TAATTTATTT
*
983742 TATATAGTTTATATATATA
1 TATATAGTGTATATATATA
983761 TATATAGGTGTATATATATA
1 TATATA-GTGTATATATATA
983781 TA
1 TA
983783 ATTTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
TATATAGTGTATATATATA
Found at i:983807 original size:20 final size:18
Alignment explanation
Indices: 983748--983809 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
983738 ATTTTATATA
983748 GTTTATATATATATATATAG
1 GTTTATATATATATA-AT-G
*
983768 GTGTATATATATATAA--
1 GTTTATATATATATAATG
983784 -TTTATATATACTATACATG
1 GTTTATATATA-TATA-ATG
983803 GTTTATA
1 GTTTATA
983810 CATACATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 9 0.26
16 4 0.11
17 1 0.03
19 1 0.03
20 20 0.57
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (18 bp):
GTTTATATATATATAATG
Found at i:983832 original size:7 final size:7
Alignment explanation
Indices: 983820--983917 Score: 74
Period size: 7 Copynumber: 14.0 Consensus size: 7
983810 CATACATTAG
983820 GGTTTAT
1 GGTTTAT
983827 GGTTTA-
1 GGTTTAT
*
983833 GTATTTAT
1 G-GTTTAT
983841 GGTTTAT
1 GGTTTAT
983848 GGTTTA-
1 GGTTTAT
983854 GGATTTAT
1 GG-TTTAT
*
983862 GATTTAT
1 GGTTTAT
* *
983869 GATTTAG
1 GGTTTAT
*
983876 GGTTTAA
1 GGTTTAT
*
983883 GGTTTAA
1 GGTTTAT
*
983890 GATTTAT
1 GGTTTAT
* *
983897 GATTTAA
1 GGTTTAT
*
983904 GGTTTAG
1 GGTTTAT
983911 GGTTTAT
1 GGTTTAT
983918 ATAAACTATA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
6 3 0.04
7 70 0.93
8 2 0.03
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (7 bp):
GGTTTAT
Found at i:983860 original size:28 final size:27
Alignment explanation
Indices: 983820--983916 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
983810 CATACATTAG
* *
983820 GGTTTATGGTTTAGTATTTATGGTTTAT
1 GGTTTA-GGTTTAGTATTTATGATTTAA
*
983848 GGTTTAGGATTTA-TGATTTATGATTTAG
1 GGTTTAGG-TTTAGT-ATTTATGATTTAA
983876 GGTTTAAGGTTTAAG-ATTTATGATTTAA
1 GGTTT-AGGTTT-AGTATTTATGATTTAA
983904 GGTTTAGGGTTTA
1 GGTTTA-GGTTTA
983917 TATAAACTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
27 5 0.08
28 51 0.85
29 4 0.07
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.51
Consensus pattern (27 bp):
GGTTTAGGTTTAGTATTTATGATTTAA
Found at i:983917 original size:21 final size:21
Alignment explanation
Indices: 983820--983916 Score: 104
Period size: 21 Copynumber: 4.6 Consensus size: 21
983810 CATACATTAG
* *
983820 GGTTTATGGTTTAGTATTTAT
1 GGTTTATGGTTTAGGATTTAA
*
983841 GGTTTATGGTTTAGGATTTAT
1 GGTTTATGGTTTAGGATTTAA
* * *
983862 GATTTATGATTTAGGGTTTAA
1 GGTTTATGGTTTAGGATTTAA
* * *
983883 GGTTTAAGATTTATGATTTAA
1 GGTTTATGGTTTAGGATTTAA
*
983904 GGTTTAGGGTTTA
1 GGTTTATGGTTTA
983917 TATAAACTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.51
Consensus pattern (21 bp):
GGTTTATGGTTTAGGATTTAA
Found at i:984753 original size:2 final size:2
Alignment explanation
Indices: 984746--984778 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
984736 TATGTTTAAT
984746 TA TA 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 TA TA T
984779 TCAAAGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:984891 original size:18 final size:17
Alignment explanation
Indices: 984865--984898 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
984855 AGAGTGAAAT
984865 TAGGAAATTTTGAGAATA
1 TAGGAAA-TTTGAGAATA
*
984883 TAGGGAATTTGAGAAT
1 TAGGAAATTTGAGAAT
984899 TTAGAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
TAGGAAATTTGAGAATA
Done.